56a87bbb8602e4d95f8e7b9409af490e *DESCRIPTION
bc6dc567e323431fe65668a75863c4e8 *LICENSE
45067fe4e0aeaa7e219ed54564ffbc63 *NAMESPACE
59af563cc348f308984e805be4f4ba37 *NEWS
69dd3e9d5ed92830671c6d240664dbc0 *R/AlphaSimR.R
8659ce4816a3766a1b2cc51814efd74a *R/Class-HybridPop.R
69db222aa3443258b9d60c40dbfee5fc *R/Class-LociMap.R
4b040b2033d846ee003a3dbf7741bdcf *R/Class-Pop.R
f125252ceffb869465421b27757769ed *R/Class-RRsol.R
e3a2a769824cc1a49ab57b070f64e69b *R/Class-SimParam.R
c2a13a1bad70db7d3bc49fe5a6eb7baf *R/GS.R
55d95f0ebbc96cf5a84aa7622be2c9ff *R/RcppExports.R
cc617dd5cff8418ef45ad133c8603bd0 *R/crossing.R
e6015dc8f1cb8126c9e316f1183e66ef *R/founderPop.R
e0c27f934d5e35ea033b6224635da75a *R/hybrids.R
76fc4beda465f95f54b0defdb34af209 *R/mergePops.R
6b9f10ef567acff4b8c8a29c5c4e1b5e *R/misc.R
a73765ded8f0866b90195b19e1b3dfd5 *R/phenotypes.R
3f12b61d385ee7d1d0233131f891a0da *R/polyploids.R
a6c202e8a81a985d29d9c7bc464ddf3a *R/popSummary.R
eae210a9fa79112150f8e68ee3db4e56 *R/pullGeno.R
d8a4bda57967757b97ed38bf75a580d3 *R/selection.R
6867b1a85517896e1c8169138c3d8919 *R/writeRecords.R
4a519ea5a539fdd8b6701d57bc4e40f5 *README.md
a8a8bfdb6c723e271ce7bfaa59afc0d2 *build/vignette.rds
c56d8dd12a1bd0477532f17dcfbff0c6 *cleanup
4fe28a8960b3f873d0b853c1127022d0 *configure
cbc30c3bdb80a0ba152033e4d689da20 *configure.ac
0b311a2b7099b549ded3000d603b540a *inst/doc/intro.R
0466ecf912e093e4d09125728eae378c *inst/doc/intro.Rmd
7b847e1bea96761b63d03d8049f941f2 *inst/doc/intro.html
6db77c0e732ec0291078ce323236bf9b *inst/doc/traits.Rmd
032f7f9bb1a47105e0cd7aac663a6187 *inst/doc/traits.pdf
8d42f75bc72876c4b27a909cfb11cb64 *man/AlphaSimR.Rd
e1d4cd37aa0cfcac23003b1a43e89a7b *man/HybridPop-class.Rd
3c7a7578a962f050a42e8075761dc5ac *man/LociMap-class.Rd
00aa7353e04e9cf92cdeb5aa181cce8f *man/MapPop-class.Rd
16247ac8d94614b9113c5cb1bd277312 *man/Pop-class.Rd
3f63cd162601537411c4a9e0cc40d20b *man/RRBLUP.Rd
9de64196fd9f796d0c02c58e15397e57 *man/RRBLUP2.Rd
66e4f17eaa6a9edf00adc9294309cd78 *man/RRBLUPMemUse.Rd
67e2b13a75bac8ad28e63fc1d055af3f *man/RRBLUP_D.Rd
134b63d389c3f56cf807384835aa8752 *man/RRBLUP_D2.Rd
e62f1b6391460d70dd13b6090716b7bc *man/RRBLUP_GCA.Rd
ce140ec4be4a1e98b1cb3f74be854c1e *man/RRBLUP_GCA2.Rd
f4fe740e0e3e35e3d1f6633feb378fed *man/RRBLUP_SCA.Rd
550c7c1015f4c541e39c6cd77c4b1c6e *man/RRBLUP_SCA2.Rd
1d59a38a5a921455c14050a4afda5fcb *man/RRsol-class.Rd
858e6b2c964b99ec43c20c483db0ad00 *man/RawPop-class.Rd
d6d5e22eb0292c049aaab5eeb841c5f2 *man/SimParam.Rd
f5a23eb46fc22e13be18d74462f777c6 *man/TraitA-class.Rd
ddbd0d5b74d693198c82df8ed24e189b *man/TraitA2-class.Rd
79e31eaa82c485d477f8a788a3fcdff5 *man/TraitA2D-class.Rd
08eb03b1e8c3e69e9669bb77b4576117 *man/TraitAD-class.Rd
8eba42ed44ba1dd50404c1a881d218ce *man/TraitADE-class.Rd
8f822f81643e617ca3bcd8223a2884ae *man/TraitADEG-class.Rd
edf038fef2b0612c1cd9c80ccbc09c32 *man/TraitADG-class.Rd
91a6cb995d3b5846e2eea484c3c6f2f8 *man/TraitAE-class.Rd
bf61bed0891bd74e7eda5b39e3e369f1 *man/TraitAEG-class.Rd
e8a83a532a55fbf7d45de9afbe2ad31f *man/TraitAG-class.Rd
c62494f3c98c186e43813afdda614a1c *man/aa.Rd
0a25bf0f3803e38a6ef56d4deab315dd *man/bv.Rd
3f07ca9e5e2d834949a9fc33ae91e59b *man/cChr.Rd
585623bda575ff90082bdcb49d1494b0 *man/calcGCA.Rd
d3554dccd76c3e5439962c6b89c65c1a *man/dd.Rd
fdad7c1aad6e3d4223256f1e0eabbf1c *man/doubleGenome.Rd
56f60780aaa59c624f082f6e8bf50f68 *man/ebv.Rd
e0544c5da87c09f533caa17bd5b2fff0 *man/editGenome.Rd
5aba60f9e9c7039a708dcbea9d13af8e *man/editGenomeTopQtl.Rd
c31eb75c89319fed7384cdecc919aa60 *man/fastRRBLUP.Rd
f3acc20679df9f345b56e6e04c84c554 *man/genParam.Rd
cb153ab178b58bc71973787300de641f *man/genicVarA.Rd
b0d16ae1626b6bc2cf7c1dd6a520604b *man/genicVarAA.Rd
0a4a1baba2cd2393cf6ca9ba4b740260 *man/genicVarD.Rd
d6f93417f52db384611fe57ec70bd867 *man/genicVarG.Rd
08d1eef5f8c45d3ad4067f03c21dca26 *man/getQtlMap.Rd
6f48d5a55f4cab6a65e346cd94033657 *man/getSnpMap.Rd
9d67d3dea8a516cf3df611f463e38290 *man/gv.Rd
e8763f0dcc13e1ec535333f3709c1d23 *man/hybridCross.Rd
7e2f81064532350abaf6ff6eedd8959d *man/makeCross.Rd
9d886c8641b3b7d0cf1659f55e6486bd *man/makeCross2.Rd
5f50e7bc73fb5f4d69aeea1cb07d8fe3 *man/makeDH.Rd
1197d8790fe2c2ce80a2ba90b3f368c5 *man/meanG.Rd
6a7988b3d377a691fa42fb932056156d *man/meanP.Rd
d79da2db340f7d12e7212ebe9f0aa0b5 *man/mergeGenome.Rd
81ec60a40e10c6b6b4d2e5efc8587d6f *man/mergePops.Rd
573df50ea78db6a234b19454d0d9cd1d *man/mutate.Rd
8748a0734fa05837da542f4068995721 *man/nInd.Rd
7bbbe95866e6c4a96f433ce97b9fe266 *man/newMapPop.Rd
b07c4db91b8c250abd255251d8bf78ad *man/newPop.Rd
547df820ed7a668a3dc3cf48135cf296 *man/pedigreeCross.Rd
3a22bd04002fa459703faafc9e54c4c5 *man/pheno.Rd
456e31e7d92ef0cd2418028e322f301a *man/popVar.Rd
a5e36eb53abf619c0c0e43c2c1b38ce6 *man/pullIbdHaplo.Rd
eae398dd28797005c5ad6eb2fd0117cf *man/pullQtlGeno.Rd
cc8f31b3bf71f024c365fe41423072bd *man/pullQtlHaplo.Rd
d1e6630072d66d4fcf0a4d3e738938b6 *man/pullSegSiteGeno.Rd
bbaf7a96f239b0de939a308db4012ebc *man/pullSegSiteHaplo.Rd
0810e8f7d4de9242cdba659fab92f9c5 *man/pullSnpGeno.Rd
dda9a40b50c619a14259c3ccc80a4da2 *man/pullSnpHaplo.Rd
31837e5c385adc353a8cca839fa29829 *man/quickHaplo.Rd
5a7c64962f182299eb46b3170d04f564 *man/randCross.Rd
56bb5d06085896f79178e9ce2efb1a84 *man/randCross2.Rd
982fd72e788eebcacca73b66699e8369 *man/reduceGenome.Rd
29bc964c0c1f0eae2c1cf875686606e7 *man/resetPop.Rd
a4d1b6522ffd618fbe955c8a19248ea4 *man/runMacs.Rd
27fa188c99fd675f32fea74392ccd8ba *man/runMacs2.Rd
4b7d578f9130bf4f833e2c0f4d4c2d7c *man/sampleHaplo.Rd
a8168ec598ebe589f34bb74758a1d60f *man/selIndex.Rd
1e6a20c079f6f3a69afaa25c7be3c49a *man/selInt.Rd
ec2ac42cc252e628e2bff6c44edc9c9a *man/selectCross.Rd
a7fb1a8c1564b36756f50137fbda5f53 *man/selectFam.Rd
83e13db983ade6c87bff8cd615e0f44c *man/selectInd.Rd
e758ef4281434674b5deaf830bdd7d0d *man/selectOP.Rd
7e17e12bf13f17eac3a753d407615bbd *man/selectWithinFam.Rd
719646dbd6619e3bcf398c024803a38c *man/self.Rd
0217d67a246e43e6e37109a49269fcf2 *man/setEBV.Rd
661a66128dd3be7d67d75476d9989caa *man/setPheno.Rd
392981c07bbacaced0045a27aaba27d0 *man/setPhenoGCA.Rd
8aa528591ee30195624b74ecd3544083 *man/smithHazel.Rd
8874c0f0560a1459e2d518c42b49faf4 *man/usefulness.Rd
3de2c81c763d94741a26c964abfb24bc *man/varA.Rd
4377c51a6900f41311c68f88c29592c5 *man/varAA.Rd
08d8292cc66f4f0ca147d31b9fdf074f *man/varD.Rd
1e15e29b4a0afb2bbb2b080f20cc34b2 *man/varG.Rd
ffa793a62b26b0b34f210bedd05d7f3c *man/varP.Rd
d5a75b3a3514b2dd6b3aece6ea6924b0 *man/writePlink.Rd
e5b0b2f51e4aa3395d131fdf60e66bd8 *man/writeRecords.Rd
672b5743ae7945dfaca51c6f728df034 *src/MME.cpp
8538ea3f1a25c4ea2751911e6b2f15ac *src/Makevars.in
bee230df6ebea3196c0fe754585c486a *src/Makevars.win
4cc194800fc8d0a444542e8b0741c292 *src/RcppExports.cpp
b61f0f447c96bb61936383f891a43799 *src/algorithm.cpp
54edda62673404d4e1619c64bf1984b9 *src/alphaSuite.cpp
3ea5fa5fe51978446b386a3e43ad0dc4 *src/alphasimr.h
1008b9bf72d00ec2accf940838502464 *src/calcGenParam.cpp
610876505ca439dd6ac7a6d714d79f8d *src/constants.h
abf8ee1ff272e3d1724c15ef80dd552b *src/datastructures.cpp
5d65d00a0001dc328c7f0cfacd9fb793 *src/getGeno.cpp
67d6bf84c189d66c12b89f1e7ca2611e *src/getGeno.h
91ea426e429e9f8159cc477d0aa8334b *src/getGv.cpp
ff92baca0004548d3b27d6bb38db81e4 *src/getHybridGv.cpp
8be664bdd1cc88a47e3b3d229ead8ed0 *src/init.c
1fa833632015302c4b5eac2b125d37e8 *src/meiosis.cpp
ba24b533871432b8621ec2ed7e17861c *src/misc.cpp
bc0c25734b5a070b832badb4367459c2 *src/misc.h
e4a088c01ee18fdb6f60d0b5f3fcf624 *src/optimize.cpp
e6422fe7abd7b30c55ca07dbce1a574d *src/optimize.h
de99601cbd273c390472ba25b2415d20 *src/packHaplo.cpp
7339b189dd61b91ce697a86def4c7c84 *src/plink.cpp
0a1c479fa66a26fa3440b32b0432f85f *src/simulator.cpp
ab2471403bb60203f733aab07cda83ef *src/simulator.h
4f73537cef0969345caec0e220f40246 *tests/testthat.R
3f6d05843ab6c59669b8f3de8b103c41 *tests/testthat/test-addTrait.R
1d2b2a259611ce4a2cb23f4b4836e152 *tests/testthat/test-crossing.R
52dd0a931fa780e88030e065781d212f *tests/testthat/test-editGenome.R
8eb3290e50d471da265080b662b0dbee *tests/testthat/test-hybrids.R
00b8896df01ad62151adf7ccb8ddfc7e *tests/testthat/test-ibdRecHaplo.R
5012f419d470d6b08ebedda893cf41f4 *tests/testthat/test-statistics.R
a83fc05efb785e2b6864c79f67a2ffe7 *vignettes/AlphaSimR.bib
0466ecf912e093e4d09125728eae378c *vignettes/intro.Rmd
6db77c0e732ec0291078ce323236bf9b *vignettes/traits.Rmd
