9e360854de6fa1ae4763ca32c5e0a2b3 *DESCRIPTION
47ccda4008e13ef83da9414ad7c478c4 *NAMESPACE
5b5df8595955d1db4f4bbd5748531b2e *R/NPOdata.R
1cee5df3e4b27403989cd45d626595d9 *R/NPOpopALT.R
778496ccbca6ccf8e368bd3189371195 *R/RcppExports.R
d1b6c809d7fe8bfe93afc0f7989fa6b8 *R/addClasses.R
3d1cab9f7d218d7f35260144987e34b3 *R/addContributions.R
c56b13686d14cf841e1fca8a1890e842 *R/agecont.R
5b50e787d59360e1e8fbb68278ce23d9 *R/bc4candes.R
a93b140e726c5e347b7660cf1ddc2d90 *R/bounds4cand.R
bcb885c6550be8c62cfbba70d621ed58 *R/candes.R
04b3e8223fdb2004e924bf6d5c02840d *R/characterizeBreeds.R
50d30718df2037bf30b24468a7ae1b47 *R/characterizeClasses.R
ffa7c237189caca152d8176ef8712ac0 *R/checkbc.R
582882e5002a2b456a22e8544c3aabc9 *R/checkcon.R
1d623b536b358b051622ab1c32c62cdb *R/checkcont.R
f090d8348aec9c59ac1e951f43729936 *R/checkphen.R
47948ddac862a20c296d07092d52fa73 *R/completeness.R
f1bc6c30ba8ad75ed7ab3045ede28501 *R/con2df.R
f6165f0a88c6ff2e153db5502c45ae23 *R/conttac.R
d4fb04544d71f42096b2a3de41c04624 *R/extractKinships.R
06b67a887ef76eb330f9e54582ec4a50 *R/f4cand.R
e936a3e1a826d53f0ce468635b0e3736 *R/freqlist.R
bff8ae4f2d79137f21ba240f71fe060c *R/fun4Kin.R
c87a205c8a2b104082313ff1b5de5c3f *R/fun4KinatN.R
c22fbb0ed9c06273f103e3d974e4590e *R/genecont.R
5ee7f764084356953b5fc3c577f42ab2 *R/genecontALT.R
15103787b52c96a008d6763deb37f35e *R/getNe.R
c109852b90d38bf9f8c97fe998b18b9b *R/getcskip.R
6e30894b62072f779dc63aec7931a2ad *R/getskip.R
c5ce512a8348224000b943022c60ed1e *R/gettraits.R
0afc159dc09b2fe5f6bd057183e2dd37 *R/haplofreq.R
56cdae60148335f2ada146325da81231 *R/lc4cand.R
acc408ab3e97f26c697f0efe05c107ae *R/makeA.R
4bf4e04db6791f69526a2e802754d86f *R/matings.R
8aab5a027936e1994de0c1f056bf0338 *R/meankin.R
e696d999aeab84964e1a714ab616f0ad *R/noffspring.R
fa5e5c6a4edf95ace6ea3e021329217d *R/onAttach.R
0b4c62f8d0205b084451f64694c41634 *R/opticomp.R
e2e1a25241ae98a582448b8fa05b7634 *R/opticont.R
b0f975d8afc665f77c6fe2ee6c252271 *R/pPOpop.R
44bb250d47bb8b392f1a76bc55ac4243 *R/param4candes.R
072330784c15c1b4253350bb63ff9176 *R/pedBreedComp.R
e2276c02fb255f3d6b74351cc97fc07a *R/pedIBD.R
504cad9cbb686aa5b3727d3913306f73 *R/pedIBDatN.R
285d08b87a548df904ebcd09e6d4e0ad *R/pedIBDorM.R
8e7cf52be586ea17bf6f9ba52be277f1 *R/pedInbreeding.R
fa7a566f1bc97e2034d9b4b212f0f357 *R/pedplot.R
cef03d204b37cf438af624baa276d10b *R/plot.HaploFreq.R
98ed030b0cdd9ce8fb326332a509b633 *R/prePed.R
b3a863c9e05cb85772e7ea51e1b115c0 *R/printParam4candes.R
f9a8d5df1f5798d91e2b8329c36682e2 *R/qcrc4cand.R
8b9db1989d0ca93ed77e30e291dfe764 *R/read.indiv.R
64888d37ffceb62b9dd86e048b167704 *R/sampleIndiv.R
343fc1d7aae54f2031c097752fc98723 *R/segBreedComp.R
6e759fa64e9e9ef1bca0ac7c14a61eac *R/segIBD.R
f09d73324d5e3a90b47a471bd5ddcfbb *R/segIBDandN.R
027c96bd170fbab067399d804786c03b *R/segIBDatN.R
83f8ba87a64a43ef77cb308f6e4c1468 *R/segInbreeding.R
10f0641f8d6a5495c3b701137dada84e *R/segN.R
c4a2a1d4f14ac74d774411bb6062cb69 *R/sim2dis.R
0ff7879d5b347cadf44e7358f3d6b630 *R/subPed.R
5ae28ef66444a069538076b31c31250c *R/summary.Pedig.R
211e9328e9d65ce455b2e12c59f3c728 *R/summary.candes.R
6597864cc48c31b25f11d9eb81c2d020 *R/summary4opticont.R
e106dda5b56476cd6974d1c5fa406706 *build/partial.rdb
41b87bbbdf8e238dd52c60f4333dfb64 *build/vignette.rds
36eea8fb2dce993af7b9aa21cbd6e49f *data/Cattle.rda
8d4bf82db4c894f8eff5da79d385a7ab *data/ExamplePed.rda
1f5e65801660e03d1a7b7b51855f55b1 *data/PedigWithErrors.rda
879482fe83c5a1414e39e83f52a0a846 *data/Phen.rda
e3aaf6e919f5b4a8cc47190cc1c39cbb *data/map.rda
253b2a174cc99de570f714fc0cc57edc *inst/doc/ocs-vignette.R
aa13715e913c849d5872d112a3354f24 *inst/doc/ocs-vignette.Rmd
a41d9be3bc23e8b1dd047bca76f8dd16 *inst/doc/ocs-vignette.html
c62dacbd5c28aad117f36561d966d11c *inst/doc/ped-vignette.R
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277d201fd68300c3d70700777051bc9f *inst/doc/ped-vignette.html
ba251f0bd155d9f04f0b86b380de0c81 *inst/doc/seg-vignette.R
d12c362bed4bc28cf69b63f5f4d58522 *inst/doc/seg-vignette.Rmd
207207c8be22e87e302960fcb5c2c5c5 *inst/doc/seg-vignette.html
a85bcc1df1a8433bca843017f95404c5 *inst/extdata/Chr1.phased
1c37fbd6edde6eb544b932b372e65923 *inst/extdata/Chr2.phased
8e83e08427b32de8eb5f817b70d027cc *man/Cattle.Rd
c16062ca4c6d3206c4c3567aca546baa *man/Chr1.phased.Rd
ac7d45f2605d40401d4d60bb39e4c27e *man/Chr2.phased.Rd
d3e39a173d73e7b99d69e5f0b2b0f705 *man/ExamplePed.Rd
6d22e414bed30bf02cf2a70a83b9ecbf *man/PedigWithErrors.Rd
48196e8f3c45aba9139468e3428f4288 *man/Phen.Rd
d015e8ae8884b5861bde57e67f2a77fd *man/agecont.Rd
e1ff41076a05aecd67e9bfd3fd9b884b *man/candes.Rd
4aef66513f0192ab6a23adc927f46b7c *man/completeness.Rd
bb9b51b31aeccdc15731c9a1c2d91b70 *man/conttac.Rd
299eb24197e820a14fdddf621247786f *man/freqlist.Rd
743614cd5c9f1702b9c6c1cf59e19a61 *man/genecont.Rd
b11bd455eae7d78508ee217687ea1637 *man/haplofreq.Rd
8e6682b917d52a78fc1e8db12cbfdf78 *man/makeA.Rd
708b70f7515e6be9b87876b2f827f356 *man/map.Rd
d15e4c548c89e6f859f4382481705aaf *man/matings.Rd
9c02d298dc432741ae7a26ecff23d42b *man/noffspring.Rd
b3b5006883ff9f251aae2a189ea0ac89 *man/optiSel-package.Rd
f63a8be6d5f1afb1bc7cc518c0230f7a *man/opticomp.Rd
9ef8e36d65c0ce8996e210ac6236c08a *man/opticont.Rd
8da8e48977c6b177ad7ce9e18ab91719 *man/pedBreedComp.Rd
bcb68f3605a553fea1319fe0fcb776c2 *man/pedIBD.Rd
91ceddbb8cee58905b905d6e9ba29cb0 *man/pedIBDatN.Rd
6b719aff6461bc16f6ccee31ece641e1 *man/pedIBDorM.Rd
de2b78f24df7c05b65e40e90c2edde58 *man/pedInbreeding.Rd
35a8c5948cd28754347dd39c63842a3e *man/pedplot.Rd
988fa167cb6653d2d613cec1e76c5ce6 *man/plot.HaploFreq.Rd
c7ae129b5391625a860351b6077231fd *man/prePed.Rd
db4492c7b5192bb1e6e2606391774d64 *man/read.indiv.Rd
fd6fb3218028f4aa5b2ef832a31c659c *man/sampleIndiv.Rd
085afeff0bd2c0207634da7c384aaa71 *man/segBreedComp.Rd
e6e29be2a8b503c9e9ef9b7bab6816c9 *man/segIBD.Rd
72a5dad27adca6fe0a2bc410e8db9689 *man/segIBDandN.Rd
47041390b20eb963c793f14076341d4b *man/segIBDatN.Rd
e76094779b4ea213f3f8aab5fbb7d974 *man/segInbreeding.Rd
711ee974d2b0cacc2809ebf40fb907c0 *man/segN.Rd
11efc517376671028973a224aed4796e *man/sim2dis.Rd
7b9d7fe3d5502a7f0b6aeb4217f3fefe *man/subPed.Rd
7552b9f3f4d4a2eae2f52ae8dd1a7314 *man/summary.Pedig.Rd
c87fc0d277ba483e51b13c956b3ba792 *man/summary.candes.Rd
2a6f9e9e044a78154d3cfda5936d6f48 *src/Makevars
de7a1b63ef8dff833ab1530e592796a6 *src/Makevars.win
0b163d7210048af9c52ea4e30c825ac7 *src/RcppExports.cpp
5d9d1ff718f0d04691c87c5e67e94f66 *src/rcpp_completeness.cpp
b3cd4320a58cee817b8866bf7ec4987c *src/rcpp_genecont.cpp
fb68a9715cc4888643a200be7e89697e *src/rcpp_haplofreq.cpp
7b62398aff68403f95eb3a2ed3754017 *src/rcpp_makeA.cpp
5f3355d8b1ba0d81d5111bafecc7d4f8 *src/rcpp_makeA_lowMem.cpp
df999042d031f823c87277fa28f092ae *src/rcpp_segBreedComp.cpp
692f71b08c117d469e63983c1c2cba19 *src/rcpp_segIBD.cpp
73b4b55d94b04b72dd1e12284c6e57b2 *src/rcpp_segIBDandN.cpp
c6fc232c06ee904727597f0d396f4e93 *src/rcpp_segIBDandNVersion2.cpp
17889148f2729e9647d307af1bc630ea *src/rcpp_segInbreeding.cpp
6d7f0b0819eb33ea2f790e197488f7b8 *src/rcpp_segN.cpp
03fc934aee18757a8bff602bb4bec201 *vignettes/HaplotypeEval/freq.Angler.Chr1.in.others.txt
21e84f70bac057ee28eb8b5cbf219705 *vignettes/HaplotypeEval/freq.Angler.Chr2.in.others.txt
5a6c57c46b2c53f4ac692b4f8934b273 *vignettes/HaplotypeEval/match.Angler.Chr1.in.others.txt
832fa1aa53d7172558e4aad81fb948b2 *vignettes/HaplotypeEval/match.Angler.Chr2.in.others.txt
aa13715e913c849d5872d112a3354f24 *vignettes/ocs-vignette.Rmd
b9e9195b9f6166ad3c2fba23438d8ce8 *vignettes/ped-vignette.Rmd
b15e67df11855355faff29b7ad31d299 *vignettes/references.bib
d12c362bed4bc28cf69b63f5f4d58522 *vignettes/seg-vignette.Rmd
