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Statement Index

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Index Entry Section
A
allow pedigree size2.5 Pedigree file description statements
assign gender3.4 pedcheck statements
assume all observed5.4.5 genedrop output pedigree options
C
check eigenvalue computation12.4.5 multivar output options
check eigenvalues12.4.5 multivar output options
check ginverse12.4.5 multivar output options
check gmatrix12.4.5 multivar output options
check progress MC iterations9.6.8 Autozyg MCMC parameters and options
check trace12.4.5 multivar output options
component compute two-locus inbreeding coefficient4.4 kin statements
compute component inbreeding coefficient4.4 kin statements
compute component kinship coefficient4.4 kin statements
compute eigenvalues12.4.4 multivar computational options
compute estimates I times13.5 lm_map statements
compute ibd statistics10.4 lm_ibdtests statements
compute inbreeding coefficient4.4 kin statements
compute kinship coefficient4.4 kin statements
compute scores every iterations9.6.8 Autozyg MCMC parameters and options
compute two-locus inbreeding coefficient4.4 kin statements
F
fit additive correlations12.4.3 multivar computational parameters
fit additive covariances12.4.3 multivar computational parameters
fit environmental model12.4.4 multivar computational options
fit residual correlations12.4.3 multivar computational parameters
fit residual covariances12.4.3 multivar computational parameters
I
ignore gender3.4 pedcheck statements
input eigenvalue file12.4.3 multivar computational parameters
input marker data file2.1 Command syntax
input marker data file2.3 File identification statements
input pedigree file2.1 Command syntax
input pedigree file2.3 File identification statements
input pedigree record father mother2.5 Pedigree file description statements
input pedigree record gender absent2.5 Pedigree file description statements
input pedigree record gender present2.5 Pedigree file description statements
input pedigree record mother father2.5 Pedigree file description statements
input pedigree record names 32.5 Pedigree file description statements
input pedigree record names 3 integers2.5 Pedigree file description statements
input pedigree record names 3 integers reals2.5 Pedigree file description statements
input pedigree record observed2.5 Pedigree file description statements
input pedigree record observed2.5 Pedigree file description statements
input pedigree record observed absent5.4.5 genedrop output pedigree options
input pedigree record observed present5.4.5 genedrop output pedigree options
input pedigree record traits integer pairs6.5.5 markerdrop input file options
input pedigree record traits integers2.5 Pedigree file description statements
input pedigree record traits integers6.5.5 markerdrop input file options
input pedigree record traits reals11.7.3 Location LOD scores pedigree file description
input pedigree size2.5 Pedigree file description statements
input rescue file9.6.2 Autozyg file identification statements
input seed file2.1 Command syntax
input seed file2.3 File identification statements
input seet file9.6.2 Autozyg file identification statements
L
limit breeding iterations12.4.3 multivar computational parameters
limit EM iterations12.4.3 multivar computational parameters
limit recombination fractions L13.5 lm_map statements
M
map chromosome gender marker distances5.4.2 genedrop mapping model parameters
map chromosome gender marker Kosambi distances5.4.2 genedrop mapping model parameters
map chromosome gender marker Kosambi positions5.4.2 genedrop mapping model parameters
map chromosome gender marker positions5.4.2 genedrop mapping model parameters
map chromosome gender marker recombination fractions5.4.2 genedrop mapping model parameters
map chromosome gender trait all interval proportions11.7.5 Location LOD scores mapping model parameters
map chromosome gender trait beginning distance11.7.5 Location LOD scores mapping model parameters
map chromosome gender trait beginning Kosambi distance11.7.5 Location LOD scores mapping model parameters
map chromosome gender trait beginning recombination fractions11.7.5 Location LOD scores mapping model parameters
map chromosome gender trait ending distance11.7.5 Location LOD scores mapping model parameters
map chromosome gender trait ending Kosambi distance11.7.5 Location LOD scores mapping model parameters
map chromosome gender trait ending recombination fractions11.7.5 Location LOD scores mapping model parameters
map chromosome gender trait external distance11.7.5 Location LOD scores mapping model parameters
map chromosome gender trait external Kosambi distance11.7.5 Location LOD scores mapping model parameters
map chromosome gender trait external recombination fractions11.7.5 Location LOD scores mapping model parameters
map chromosome gender trait intervals proportions11.7.5 Location LOD scores mapping model parameters
map chromosome gender traits markers distances5.4.2 genedrop mapping model parameters
map chromosome gender traits markers Kosambi distances5.4.2 genedrop mapping model parameters
map chromosome gender traits markers recombination fractions5.4.2 genedrop mapping model parameters
map chromosome marker distances5.4.2 genedrop mapping model parameters
map chromosome marker Kosambi distances5.4.2 genedrop mapping model parameters
map chromosome marker Kosambi positions5.4.2 genedrop mapping model parameters
map chromosome marker positions5.4.2 genedrop mapping model parameters
map chromosome marker recombination fractions5.4.2 genedrop mapping model parameters
map chromosome trait all interval proportions11.7.5 Location LOD scores mapping model parameters
map chromosome trait beginning distance11.7.5 Location LOD scores mapping model parameters
map chromosome trait beginning Kosambi distance11.7.5 Location LOD scores mapping model parameters
map chromosome trait beginning recombination fractions11.7.5 Location LOD scores mapping model parameters
map chromosome trait ending distance11.7.5 Location LOD scores mapping model parameters
map chromosome trait ending Kosambi distance11.7.5 Location LOD scores mapping model parameters
map chromosome trait ending recombination fractions11.7.5 Location LOD scores mapping model parameters
map chromosome trait external distance11.7.5 Location LOD scores mapping model parameters
map chromosome trait external Kosambi distance11.7.5 Location LOD scores mapping model parameters
map chromosome trait external recombination fractions11.7.5 Location LOD scores mapping model parameters
map chromosome trait intervals proportions11.7.5 Location LOD scores mapping model parameters
map chromosome traits markers distances5.4.2 genedrop mapping model parameters
map chromosome traits markers Kosambi distances5.4.2 genedrop mapping model parameters
map chromosome traits markers recombination fractions5.4.2 genedrop mapping model parameters
map gender marker distance6.5.2 markerdrop mapping model parameters
map gender marker distances5.4.2 genedrop mapping model parameters
map gender marker Kosambi distance6.5.2 markerdrop mapping model parameters
map gender marker Kosambi distances5.4.2 genedrop mapping model parameters
map gender marker Kosambi position6.5.2 markerdrop mapping model parameters
map gender marker Kosambi positions5.4.2 genedrop mapping model parameters
map gender marker position6.5.2 markerdrop mapping model parameters
map gender marker positions5.4.2 genedrop mapping model parameters
map gender marker recombination fraction6.5.2 markerdrop mapping model parameters
map gender marker recombination fractions5.4.2 genedrop mapping model parameters
map gender trait all interval proportions11.7.5 Location LOD scores mapping model parameters
map gender trait beginning distance11.7.5 Location LOD scores mapping model parameters
map gender trait beginning recombination fractions11.7.5 Location LOD scores mapping model parameters
map gender trait ending distance11.7.5 Location LOD scores mapping model parameters
map gender trait ending recombination fractions11.7.5 Location LOD scores mapping model parameters
map gender trait external distance11.7.5 Location LOD scores mapping model parameters
map gender trait external Kosambi distance11.7.5 Location LOD scores mapping model parameters
map gender trait external recombination fractions11.7.5 Location LOD scores mapping model parameters
map gender trait intervals proportions11.7.5 Location LOD scores mapping model parameters
map gender trait Kosambi beginning distance11.7.5 Location LOD scores mapping model parameters
map gender trait Kosambi ending distance11.7.5 Location LOD scores mapping model parameters
map gender trait marker distance6.5.2 markerdrop mapping model parameters
map gender trait marker Kosambi distance6.5.2 markerdrop mapping model parameters
map gender trait marker recombination fraction6.5.2 markerdrop mapping model parameters
map gender traits markers distances5.4.2 genedrop mapping model parameters
map gender traits markers Kosambi distances5.4.2 genedrop mapping model parameters
map gender traits markers recombination fractions5.4.2 genedrop mapping model parameters
map marker distance6.5.2 markerdrop mapping model parameters
map marker distances5.4.2 genedrop mapping model parameters
map marker Kosambi distance6.5.2 markerdrop mapping model parameters
map marker Kosambi distances5.4.2 genedrop mapping model parameters
map marker Kosambi position6.5.2 markerdrop mapping model parameters
map marker Kosambi positions5.4.2 genedrop mapping model parameters
map marker position6.5.2 markerdrop mapping model parameters
map marker positions5.4.2 genedrop mapping model parameters
map marker recombination fraction6.5.2 markerdrop mapping model parameters
map marker recombination fractions5.4.2 genedrop mapping model parameters
map trait all interval proportions11.7.5 Location LOD scores mapping model parameters
map trait beginning distance11.7.5 Location LOD scores mapping model parameters
map trait beginning Kosambi distance11.7.5 Location LOD scores mapping model parameters
map trait beginning recombination fractions11.7.5 Location LOD scores mapping model parameters
map trait ending distance11.7.5 Location LOD scores mapping model parameters
map trait ending Kosambi distance11.7.5 Location LOD scores mapping model parameters
map trait ending recombination fractions11.7.5 Location LOD scores mapping model parameters
map trait external distance11.7.5 Location LOD scores mapping model parameters
map trait external Kosambi distance11.7.5 Location LOD scores mapping model parameters
map trait external recombination fractions11.7.5 Location LOD scores mapping model parameters
map trait intervals proportions11.7.5 Location LOD scores mapping model parameters
map trait marker distance6.5.2 markerdrop mapping model parameters
map trait marker Kosambi distance6.5.2 markerdrop mapping model parameters
map trait marker recombination fraction6.5.2 markerdrop mapping model parameters
map traits markers distances5.4.2 genedrop mapping model parameters
map traits markers Kosambi distances5.4.2 genedrop mapping model parameters
map traits markers recombination fractions5.4.2 genedrop mapping model parameters

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This document was generated by Elizabeth Thompson on September, 10 2010 using texi2html