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1 Introduction to the Study of Animals |
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1 | (7) |
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1 | (2) |
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1.1.1 Absolute and related estimates |
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2 | (1) |
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2 | (1) |
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2 | (1) |
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1.2 Errors and confidence |
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3 | (3) |
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1.2.1 Calculating confidence limits about the mean using R |
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4 | (1) |
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1.2.2 Jackknife and bootstrap estimation of confidence limits |
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4 | (2) |
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1.3 Studies of communities |
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6 | (2) |
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6 | (2) |
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2 The Sampling Programme and the Measurement and Description of Dispersion |
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8 | (55) |
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8 | (11) |
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2.1.1 Planning and fieldwork |
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8 | (4) |
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2.1.2 Data control and statistical aspects |
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12 | (2) |
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2.1.3 The normal distribution and transformations |
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14 | (5) |
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2.2 The sampling programme |
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19 | (8) |
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2.2.1 The number of samples per habitat unit (e.g. plant, host, or puddle) |
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19 | (2) |
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2.2.2 The sampling unit: its selection, size, and shape |
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21 | (2) |
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2.2.3 The number of samples |
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23 | (1) |
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2.2.4 The pattern of sampling |
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24 | (2) |
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2.2.5 The timing of sampling |
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26 | (1) |
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27 | (7) |
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2.3.1 Mathematical distributions that serve as models |
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27 | (7) |
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34 | (9) |
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2.4.1 Index of dispersion: the departure of the distribution from randomness |
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34 | (1) |
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2.4.2 Taylor's power law as a measure of aggregation |
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34 | (3) |
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37 | (1) |
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2.4.4 Lloyd's mean crowding and patchiness |
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37 | (2) |
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2.4.5 Iwao's ρ index: a measure of colony area |
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39 | (1) |
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2.4.6 Lloyd's mean crowding and Iwao's patchiness regression indices for the population and species |
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40 | (1) |
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2.4.7 Breder's equations: a measure of the cohesion of aggregations |
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40 | (1) |
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2.4.8 Deevey's coefficient of crowding |
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41 | (1) |
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2.4.9 SADIE: Spatial Analysis by Distance Indices |
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42 | (1) |
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2.5 Nearest-neighbour and related techniques: measures of population size or of the departure from randomness of the distribution |
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43 | (3) |
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2.5.1 Nearest-neighbour method |
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45 | (1) |
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2.5.2 Closest individual or distance method |
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46 | (1) |
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46 | (3) |
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46 | (3) |
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2.7 Presence--absence sampling: binomial data analysis |
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49 | (2) |
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51 | (1) |
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2.9 Biological and other qualitative aspects of sampling |
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51 | (12) |
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52 | (11) |
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3 Absolute Population Estimates Using Capture--Recapture Experiments |
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63 | (50) |
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3.1 Capture--recapture methods |
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64 | (1) |
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3.2 What accuracy can be expected? |
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64 | (14) |
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3.2.1 Assumptions common to most methods |
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65 | (2) |
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3.2.2 Estimating closed populations |
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67 | (8) |
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3.2.3 Estimations for open populations |
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75 | (3) |
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3.3 The Fisher--Ford method |
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78 | (6) |
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3.3.1 Bailey's triple-catch method |
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78 | (1) |
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3.3.2 Jolly--Seber stochastic method |
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79 | (3) |
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82 | (1) |
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3.3.4 Manly and Parr's and Manly et al.'s ageing methods |
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82 | (1) |
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3.3.5 Cormack's log-linear method |
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83 | (1) |
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3.4 Methods of marking animals |
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84 | (29) |
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3.4.1 Handling techniques |
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85 | (2) |
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87 | (1) |
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3.4.3 Surface marks using paints and solutions of dyes |
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87 | (3) |
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3.4.4 Dyes and fluorescent substances in powder form |
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90 | (2) |
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92 | (1) |
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3.4.6 Marking formed by feeding on or absorption of dyes |
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93 | (1) |
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3.4.7 Marking by injection, Panjet, or tattooing |
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94 | (1) |
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95 | (1) |
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96 | (1) |
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96 | (1) |
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3.4.11 Natural marks, photo-ID, parasites, and genes |
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96 | (1) |
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97 | (1) |
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98 | (1) |
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3.4.14 Radioactive isotopes |
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98 | (1) |
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3.4.15 Radio and sonic tags |
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98 | (1) |
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99 | (14) |
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4 Absolute Population Estimates by Sampling a Unit of Habitat: Air, Plants, Plant Products, and Vertebrate Hosts |
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113 | (32) |
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4.1 Sampling from the air |
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113 | (1) |
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114 | (3) |
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4.2.1 Exposed cone (Johnson--Taylor) suction trap |
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114 | (1) |
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4.2.2 Enclosed cone types of suction trap, including the Rothamstead 12-m trap |
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115 | (1) |
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4.2.3 Rotary and other traps |
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115 | (2) |
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4.2.4 Remote aerial vehicles as insect samplers |
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117 | (1) |
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4.3 Comparison and efficiencies of the different types of suction trap |
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117 | (2) |
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4.3.1 Conversion of catch to aerial density |
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118 | (1) |
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4.3.2 Conversion of density to total aerial population |
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119 | (1) |
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119 | (16) |
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4.4.1 Assessing the plant |
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120 | (1) |
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4.4.2 Determining the numbers of invertebrates |
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120 | (1) |
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4.4.3 The separation of exposed small animals from the foliage on which they are living |
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121 | (3) |
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4.4.4 The expulsion of animals from tall vegetation |
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124 | (2) |
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4.4.5 The extraction of animals from herbage and debris |
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126 | (7) |
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4.4.6 Methods for animals in plant tissues |
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133 | (1) |
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4.4.7 Special sampling problems with animals in plant material |
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134 | (1) |
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4.5 Sampling from vertebrate hosts |
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135 | (10) |
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4.5.1 Sampling from living hosts |
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135 | (2) |
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4.5.2 Sampling from dead hosts |
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137 | (1) |
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4.5.3 Sampling from vertebrate `homes' |
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138 | (1) |
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138 | (7) |
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5 Absolute Population Estimates by Sampling a Unit of Aquatic Habitat |
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145 | (31) |
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145 | (6) |
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145 | (3) |
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148 | (1) |
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5.1.3 Water sampling bottles |
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149 | (1) |
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5.1.4 The Patalas--Schindler volume sampler |
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149 | (1) |
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5.1.5 Particular methods for insects* |
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150 | (1) |
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151 | (5) |
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5.2.1 Floating vegetation |
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151 | (3) |
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5.2.2 Emergent vegetation |
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154 | (1) |
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5.2.3 Submerged vegetation |
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155 | (1) |
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156 | (15) |
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5.3.1 Hand net sampling of forest litter |
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157 | (1) |
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5.3.2 Sampling from under stones |
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157 | (2) |
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5.3.3 The planting of removable portions of the substrate |
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159 | (1) |
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5.3.4 Cylinders and boxes for delimiting an area |
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160 | (2) |
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5.3.5 Trawls, bottom sledges and dredges |
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162 | (2) |
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164 | (2) |
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5.3.7 Dendy inverting sampler |
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166 | (2) |
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5.3.8 Box samplers and corers |
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168 | (1) |
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5.3.9 Air-lift and suction devices |
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168 | (3) |
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5.4 Poisons and anaesthetics used for sampling fish in rock pools and small ponds |
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171 | (5) |
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171 | (5) |
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6 Absolute Population Estimates by Sampling a Unit of Soil or Litter Habitat: Extraction Techniques |
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176 | (28) |
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176 | (2) |
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178 | (1) |
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6.3 Mechanical methods of extraction |
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178 | (10) |
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178 | (1) |
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179 | (1) |
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6.3.3 Soil washing and flotation |
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180 | (2) |
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182 | (1) |
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6.3.5 The separation of plant and insects by differential wetting |
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183 | (2) |
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185 | (1) |
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185 | (1) |
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185 | (2) |
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187 | (1) |
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188 | (1) |
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6.4 Behavioral or dynamic methods |
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188 | (9) |
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188 | (4) |
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192 | (1) |
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193 | (4) |
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6.4.4 Chemical extraction |
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197 | (1) |
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6.4.5 Electrical extraction |
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197 | (1) |
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6.5 Summary of the applicability of the methods |
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197 | (7) |
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197 | (1) |
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198 | (1) |
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199 | (1) |
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199 | (5) |
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7 Relative Methods of Population Measurement and the Derivation of Absolute Estimates |
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204 | (64) |
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7.1 Factors affecting the size of relative estimates |
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204 | (5) |
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7.1.1 The `phase' of the animal |
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204 | (1) |
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7.1.2 The activity of the animal |
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205 | (2) |
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7.1.3 Differences in the response between species, sexes, and individuals |
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207 | (1) |
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7.1.4 The efficiency of the trap or searching method |
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208 | (1) |
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7.2 The uses of relative methods |
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209 | (2) |
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7.2.1 Measures of the availability |
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209 | (1) |
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7.2.2 Indices of absolute population |
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210 | (1) |
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7.2.3 Estimates of absolute population |
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210 | (1) |
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7.2.4 `Calibration' by comparison with absolute estimates |
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210 | (1) |
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7.3 Removal trapping or collecting |
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211 | (3) |
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7.3.1 Assumptions underlying Zippin's and Carle and Scrub's methods |
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211 | (1) |
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7.3.2 Software for the computation of population size using removal sampling |
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212 | (1) |
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7.3.3 Simplified calculations with two or three sampling occasions |
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212 | (1) |
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7.3.4 Graphical and regression methods with constant probability of capture |
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213 | (1) |
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7.3.5 Dealing with variable probabilities of capture and the general maximum likelihood model |
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213 | (1) |
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214 | (1) |
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7.5 Relative methods: catch per unit effort |
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214 | (8) |
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7.5.1 Observation by radar |
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214 | (1) |
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7.5.2 Hydroacoustic methods |
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215 | (1) |
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216 | (1) |
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216 | (1) |
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217 | (1) |
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217 | (1) |
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7.5.7 Collecting with a net or similar device |
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217 | (5) |
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7.5.8 Visual searching and pooting |
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222 | (1) |
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7.6 Relative methods: trapping |
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222 | (21) |
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223 | (2) |
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7.6.2 Water: drift samplers and fish traps |
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225 | (6) |
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7.6.3 Flight traps combining interception and attraction |
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231 | (3) |
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7.6.4 Light and other visual traps |
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234 | (9) |
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7.7 Traps that attract animals by some natural stimulus or a substitute |
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243 | (25) |
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243 | (1) |
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244 | (1) |
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244 | (3) |
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7.7.4 The use of vertebrate hosts or substitutes as bait for insects |
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247 | (4) |
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251 | (1) |
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251 | (17) |
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8 Estimates of Species Richness and Population Size Based on Signs, Products, and Effects |
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268 | (13) |
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268 | (3) |
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268 | (1) |
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269 | (2) |
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8.2 Vertebrate products and effects |
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271 | (1) |
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8.3 Effects due to an individual insect |
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272 | (1) |
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8.4 General effects: plant damage |
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273 | (3) |
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273 | (3) |
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8.5 Determining the relationship between damage and insect populations |
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276 | (5) |
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276 | (5) |
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9 Wildlife Population Estimates by Census and Distance Measuring Techniques |
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281 | (12) |
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282 | (1) |
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9.2 Point and line survey methods |
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282 | (2) |
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9.2.1 Indices of abundance using transects |
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282 | (2) |
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9.3 Line transect methods: the Fourier series estimator |
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284 | (4) |
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288 | (1) |
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9.5 Distance sampling software in R |
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288 | (1) |
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9.6 Spatial distribution and plotless density estimators |
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289 | (4) |
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9.6.1 Closest-individual or distance method |
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290 | (1) |
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9.6.2 Nearest-neighbour methods |
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290 | (1) |
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291 | (2) |
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10 Observational and Experimental Methods to Estimate Natality, Mortality, Movement, and Dispersal |
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293 | (43) |
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293 | (1) |
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293 | (2) |
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10.3 Numbers entering a stage |
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295 | (5) |
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10.4 The birth rate from mark-recapture data |
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300 | (1) |
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300 | (11) |
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300 | (5) |
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10.5.2 Exclusion techniques |
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305 | (6) |
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311 | (25) |
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10.6.1 Detecting and quantifying jump dispersal |
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311 | (1) |
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10.6.2 Quantifying neighbourhood dispersal |
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312 | (6) |
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10.6.3 Methods based on a two-dimensional solution of the diffusion equation |
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318 | (1) |
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10.6.4 The boundary-flux approach |
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319 | (1) |
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10.6.5 The rate of population interchange between two areas |
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319 | (1) |
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10.6.6 The description of population displacement in relation to its dispersion |
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320 | (1) |
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10.6.7 The measurement and description of home range and territory |
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320 | (4) |
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10.6.8 The rate of colonization of a new habitat and artificial substrates |
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324 | (1) |
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10.6.9 The direction of migration |
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324 | (1) |
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324 | (12) |
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11 The Construction, Description, and Analysis of Age-Specific Life-Tables |
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336 | (26) |
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11.1 Types of life-table and the budget |
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336 | (1) |
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11.2 The construction of a budget |
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336 | (1) |
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11.3 Analysis of stage-frequency data |
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337 | (1) |
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11.3.1 Southwood's graphical method |
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338 | (1) |
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11.4 Richards and Waloff's first method |
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338 | (6) |
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340 | (1) |
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340 | (1) |
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341 | (1) |
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11.4.4 Richards and Waloff's Second Method |
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341 | (1) |
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11.4.5 Kiritani, Nakasuji, and Manly's method |
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342 | (1) |
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343 | (1) |
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11.4.7 The Bellows and Birley method |
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343 | (1) |
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11.5 The description of budgets and life-tables |
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344 | (4) |
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11.5.1 Survivorship curves |
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344 | (1) |
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11.5.2 Stock--recruitment (Moran--Ricker) curves |
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344 | (2) |
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11.5.3 The life-table and life expectancy |
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346 | (1) |
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11.5.4 Life and fertility tables and the net reproductive rate |
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347 | (1) |
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11.6 Population growth rates |
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348 | (2) |
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11.6.1 The calculation of r |
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349 | (1) |
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11.7 The analysis of life-table data |
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350 | (1) |
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11.7.1 The comparison of mortality factors within a generation |
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351 | (1) |
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11.8 Survival and life budget analysis |
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351 | (11) |
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11.8.1 Varley and Gradwell's method: K-value or key-factor analysis |
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352 | (5) |
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11.8.2 Sibley's A contribution analysis |
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357 | (1) |
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11.8.3 Methods devoloped from demographic methods |
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358 | (1) |
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358 | (4) |
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12 Age-Grouping, Time-Specific Life-Tables, and Predictive Population Models |
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362 | (22) |
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362 | (9) |
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12.1.1 Ageing young by developmental stage |
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362 | (2) |
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12.1.2 Ageing by using structures |
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364 | (7) |
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12.2 Time-specific life-tables and survival rates |
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371 | (13) |
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12.2.1 Physiological time |
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372 | (1) |
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12.2.2 Life-table parameters |
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373 | (1) |
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12.2.3 Recruitment in the field |
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373 | (1) |
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12.2.4 Lewis--Leslie matrices and R packages |
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374 | (3) |
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377 | (7) |
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13 Species Richness, Diversity, and Packing |
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384 | (46) |
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385 | (1) |
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13.2 Description of α- and γ-diversity |
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385 | (1) |
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386 | (12) |
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13.3.1 Extrapolating the species accumulation curve, rarefaction |
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387 | (3) |
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13.3.2 Rarefaction to compare species richness |
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390 | (1) |
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13.3.3 Sample-based rarefaction |
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391 | (1) |
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13.3.4 An example of sample-based rarefaction |
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391 | (1) |
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13.3.5 Using parametric models of relative abundance to estimate species richness |
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391 | (1) |
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13.3.6 Non-parametric estimates of species richness |
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392 | (1) |
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13.3.7 Software for calculating species richness and rarefaction |
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393 | (1) |
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13.3.8 Models for the S:N relationship |
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394 | (4) |
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13.4 Non-parametric indices of diversity |
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398 | (1) |
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13.4.1 Shannon--Wiener function (H) |
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398 | (1) |
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13.4.2 Simpson--Yule index (D) |
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399 | (1) |
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13.5 Berger--Parker dominance index |
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399 | (4) |
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13.5.1 Evenness (equitability) |
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400 | (1) |
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13.5.2 Mcintosh diversity measure |
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400 | (1) |
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13.5.3 Comparing diversities, diversity ordering, and Hill numbers |
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400 | (1) |
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13.5.4 Which model or index? |
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401 | (2) |
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13.6 Procedure to determine α-diversity |
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403 | (1) |
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13.7 Determining β-diversity |
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404 | (1) |
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13.8 Partitioning β-diversity between species replacement and loss |
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405 | (1) |
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13.9 Similarity and the comparison and classification of samples |
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406 | (3) |
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13.9.1 Measures of complementarity |
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406 | (1) |
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13.9.2 Similarity indices |
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406 | (2) |
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13.9.3 Computation and display of indices |
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408 | (1) |
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13.10 Multivariate analysis |
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409 | (7) |
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410 | (4) |
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414 | (1) |
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415 | (1) |
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13.11 Measurement of interspecific association |
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416 | (2) |
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13.11.1 The departure of the distribution of presence or absence from independence |
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416 | (2) |
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13.12 Measurement of resource-utilization |
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418 | (4) |
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13.12.1 Species packing in terms of mean and width of resource-utilization spectrum (d/w method) |
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420 | (1) |
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13.12.2 Species packing in terms of proportional utilization of different resource states (pi method) |
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421 | (1) |
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13.13 Niche size and competition coefficients |
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422 | (8) |
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13.13.1 Software to calculate niche overlap statistics |
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423 | (2) |
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425 | (5) |
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14 Estimation of Productivity and the Construction of Energy Budgets |
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430 | (28) |
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14.1 Estimation of standing crop |
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432 | (1) |
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14.2 Measurement of biomass |
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432 | (1) |
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14.3 Determination of energy density |
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433 | (1) |
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14.4 Estimation of energy flow |
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433 | (1) |
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14.5 The measurement of production |
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434 | (2) |
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14.6 The measurement of feeding and assimilation |
|
|
436 | (4) |
|
14.6.1 The quality of the food eaten |
|
|
436 | (1) |
|
14.6.2 Feeding and assimilation rates |
|
|
437 | (3) |
|
14.7 The measurement of the energy loss due to respiration and metabolic process |
|
|
440 | (6) |
|
|
440 | (1) |
|
14.7.2 The exchange of respiratory gases |
|
|
440 | (6) |
|
14.8 The energy budget, efficiencies, and transfer coefficients |
|
|
446 | (1) |
|
14.9 The energy budget of a population (or trophic level) |
|
|
446 | (3) |
|
14.9.1 Dynamic energy budget models |
|
|
447 | (2) |
|
14.9.2 Energy transfer across trophic links |
|
|
449 | (1) |
|
14.10 Identification of ecological pathways using stable isotopes |
|
|
449 | (2) |
|
14.11 Assessment of energy and time costs of strategies |
|
|
451 | (7) |
|
|
451 | (7) |
|
15 Techniques for the Study of Long-Term Dynamics: Analyzing Time Series |
|
|
458 | (29) |
|
15.1 Examples of Long-term studies and the need for careful interpretation of change |
|
|
458 | (2) |
|
15.2 Planning temporal sampling |
|
|
460 | (1) |
|
15.3 The classification of time series |
|
|
460 | (10) |
|
15.3.1 Using R for time series decomposition |
|
|
462 | (8) |
|
15.4 Detecting synchrony and species associations between time series |
|
|
470 | (1) |
|
15.5 Measuring temporal variability |
|
|
471 | (2) |
|
15.5.1 Tilman's index of community stability |
|
|
473 | (1) |
|
15.6 Detecting break-points |
|
|
473 | (3) |
|
15.7 Determining if a species has become extinct |
|
|
476 | (1) |
|
15.8 Detection of density dependence in time series |
|
|
477 | (4) |
|
15.8.1 Bulmer's (1975) test |
|
|
477 | (1) |
|
15.8.2 Pollard et al.'s (1987) randomization test |
|
|
478 | (1) |
|
15.8.3 Dennis and Taper's (1994) bootstrap approach |
|
|
479 | (1) |
|
15.8.4 Using a battery of approaches to detect density dependence |
|
|
480 | (1) |
|
15.9 Temporal β-diversity |
|
|
481 | (6) |
|
15.9.1 Similarity and dissimilarity measures |
|
|
482 | (1) |
|
|
482 | (1) |
|
|
483 | (1) |
|
|
483 | (1) |
|
15.9.5 Defining the assemblage of interest: which taxa should be included? |
|
|
483 | (1) |
|
15.9.6 Null models and the nature of change |
|
|
483 | (1) |
|
|
484 | (3) |
|
16 Studies at Large Spatial Scales, Citizen Science, and the Classification of Habitats |
|
|
487 | (12) |
|
16.1 Planning spatial and temporal sampling |
|
|
487 | (1) |
|
16.2 Remote sensing data from satellites |
|
|
488 | (2) |
|
16.3 Remote sensing using piloted and unmanned aircraft |
|
|
490 | (1) |
|
16.4 Distributed networks of sensors and samplers |
|
|
490 | (1) |
|
16.5 Biodiversity and inventory databases |
|
|
491 | (1) |
|
16.6 Detecting break-points |
|
|
491 | (1) |
|
16.7 Geographical information systems |
|
|
491 | (1) |
|
16.8 Citizen science projects |
|
|
492 | (1) |
|
|
493 | (1) |
|
16.10 Species richness change and scale |
|
|
494 | (1) |
|
16.11 Habitat classification |
|
|
494 | (5) |
|
|
494 | (1) |
|
|
494 | (2) |
|
|
496 | (3) |
Index |
|
499 | |