EESC Software Archive

The following programs were developed at EESC and elsewhere for the analysis of animal populations for wildlife biologists/managers.

Program	Description
BAND2	Computes the number of animals that must be banded in order to achieve a specified level of precision for survival rates estimated using band recovery models.
BROWNIE	Computes estimates of survival and recovery rates for 2-age class band-recovery data.
CAPQUOTA	Computes expected coefficients of variation of survival and capture probability for use in the design of capture-recapture-resighting experiments.
CAPTURE	Computes estimates of capture probability and population size for "closed" population capture-recapture data.
CENTROID	Tests the null hypothesis that two samples of recoveries belong to the same bivariate distribution.
COMDYN	Computes estimates of species richness using large scale data.
CONTRAST	Compares estimates of survival (or any normally distributed parameter estimates).
CountRemoval	A removal model for estimating detection probabilities from point count surveys.
DOSECOMP	Analyzes dose responses for two populations, using the PROBIT model and the abbreviated protocol as described by Link et al(1996).
DOBSERV	A Double-observer approach for estimating detection probability and abundance from avian point counts as described in Nichols et. al. (2000).
ESTIMATE	Computes estimates of survival and recovery rates for 1-age class band-recovery data.
fatalityCMR	Estimates fatalities using raw counts of wildlife fatalities, trial experiments for carcass detection probability and persistence time.
GENCAPH1	Generates capture-history data for given s,theta,p,c.
JOLLY	Computes estimates of survival and capture probability for 1-age class open population capture-recapture models.
JOLLYAGE	Computes estimates of survival and capture probability for 2-age class open population capture-recapture models.
LOLASURVIV	Computes estimates of survival and capture probability for open capture-recapture models when sex is not allways known.
MAYFIELD	Computes estimates of daily survival rate for nest visitation data.
MSSURVIV	Computes estimates of survival-movement and capture probability for open capture-recapture models.
MSSRVRD	(BETA) replacement for MSSURVIV, RDSURV - Combines multi-strata, robust-design and trap-deaths.
MSSRVRCV	Computes survival-movement, capture and recovery probabilities from multi-strata capture-recapture-recovery data.
MSSRVMIS	Computes estimates of survival and capture probability adjusted for missclassification.
MULT	Computes estimates of survival and recovery rates for band-recovery data with additional models for estimating reporting rate.
nestAbund	Estimates abundance of nests using a capture-recapture approach which deals with imperfect detection probability as well as the impact of environmental and individual covariates on nest fate.
ORDSURVIV	Computes estimates of survival and temporary emigration under the "Open Robust Design".
POWER	Computes the power of between-model likelihood ratio tests.
PRESENCE	Estimates patch occupancy rates and related parameters.
RDSURVIV	Computes estimates of survival and capture probability using capture-recapture data with "robust-design" models and recoveries.
RELEASE	Computes estimates of survival and capture probability for capture-recapture experiments on open animal populations.
SCATMAN	Tests the hypothesis of prey-selectivity based on random samples of predator scats.
SPACECAP	Estimates Animal Abundance and Density using Spatially-Explicit Capture-Recapture.
SPECRICH	Computes "species richness" or total number of species from emperical species abundance distribution data.
SPECRICH2	Estimates the total number of species from species presence-absence data on multiple sample sites or occasions using model M(h) from program CAPTURE.
SURVIV	Computes estimates of survival (or any model parameter) with multinomially distributed data.
TMSURVIV	Computes estimates of survival and capture probability and the proportion of transients in open population capture-recapture data.

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Other www sites with wildlife-related software:

• Colorado State University Department of Fishery and Wildlife Biology MARK

• Population Analysis Software Group POPAN

• www.PhiDot.Org (Evan Cooch's) software page.

• www.mrc-bsu.cam.ac.uk/software/bugs/  WINBUGS - Basian inference Using Gibbs Sampling.

Disclaimer:

Although this program has been used by the U.S. Geological Survey (USGS), no warranty, expressed or implied, is made by the USGS or the U.S. Government as to the accuracy and functioning of the program and related program material nor shall the fact of distribution constitute any such warranty, and no responsibility is assumed by the USGS in connection therewith.

Citations

One of the problems with obtaining software from the Web is that hard copy documentation is not available. The following site provides information on how to cite electronic documents:

• MLA-Style Citations of Electronic Sources

Here are sample citations for two of the programs:

• Hines, J. E. (2006). PRESENCE- Software to estimate patch occupancy and related parameters. USGS-EESC. http://www.mbr-pwrc.usgs.gov/software/presence.html.
• Hines, J. E. (1996). SPECRICH Software to compute species abundance from emperical species abundance distribution data. USGS-EESC. http://www.mbr-pwrc.usgs.gov/software/specrich.html.

Program SURVIV requires a FORTRAN compiler to generate the user-defined estimation routine. If you do not have one, click here to download the FREE Gnu FORTRAN compiler for WINDOWS.

A good, free ascii text editor (Notepad++) can be downloaded here.

This list is maintained by:

Jim Hines (jhines@usgs.gov)
Eastern Ecological Science Center
12100 Beech Forest Rd
Laurel, Md 20708-4030

Last updated: 31-May-2017