2f96df82c40636190202f4a40bfa83bb *DESCRIPTION
60da859463482a7ed89f264766728188 *LICENSE
e81de523b6e653f4fe39c826a62ebc65 *NAMESPACE
17e53f2296faa768ead7fbbd12d8fd20 *NEWS
0f038bb75b805b6d2309896d9c739eeb *R/AlphaSimR.R
71e21ce1cb6e9bdd7eb29b5296679dea *R/Class-HybridPop.R
76096e71c51cdb114af5a94d4e4adfdc *R/Class-LociMap.R
e7ab0272151fdf407e51f6aede2b993b *R/Class-Pop.R
2cbf7e86242f75543438c25ad7f911b4 *R/Class-RRsol.R
abc2f615f93c847ebc144ba6e1d48054 *R/Class-SimParam.R
3219f9bd674d42a42d16d39399664982 *R/GS.R
220de58dcc23bda3c882c4eb09b6795d *R/RcppExports.R
98cfb624c8e682baf5a61653657e4703 *R/crossing.R
63b06aa6342ba5a25a4dc4773dd9c2db *R/founderPop.R
7a698c9c674c3cd99df2db7e99de9196 *R/hybrids.R
20d9395796490e0b231aaed120e34b30 *R/mergePops.R
95eda88b7320b45ae2247dd3cd1fe5ea *R/misc.R
1fb2901c6372a179fb3666b08d38998c *R/phenotypes.R
4bc2976e3ebaef8a16654a376df844cd *R/polyploids.R
cb4de4b5024613e66e0b60d2cedd9f6e *R/popSummary.R
f28a0e443c8ff2442723b689b19b8302 *R/pullGeno.R
a982533800720980fe9ecb983cd3d82a *R/selection.R
baf5f2caa8fdc9d81e75928298e3bac5 *R/writeRecords.R
da260f740e07c7455a614cbe01e26d7b *README.md
ef04e7728e8e881885143fb29bcc8249 *build/vignette.rds
c56d8dd12a1bd0477532f17dcfbff0c6 *cleanup
4fe28a8960b3f873d0b853c1127022d0 *configure
cbc30c3bdb80a0ba152033e4d689da20 *configure.ac
9be964c4daef73aa035a6aecc42a12b9 *inst/CITATION
a9eff901e41bcc9721efdd0b085ba0dd *inst/doc/intro.R
8890eebb84665107d7e684461741ec9a *inst/doc/intro.Rmd
4ccdd17f7c0a22792f35fbcd9ac7d9b4 *inst/doc/intro.html
41d9bac5bd56c1722ba82f7848b0d0d3 *inst/doc/traits.Rmd
cde469288751adfc154fc09ed5b103a2 *inst/doc/traits.pdf
e8acc6187281a6c0b11377c16a60c8ff *man/AlphaSimR-package.Rd
d8b97c4d5a683e658669ad8ac7a3b4f6 *man/HybridPop-class.Rd
480331dda42000ba418bd6bc8cfe1388 *man/LociMap-class.Rd
3936bfed37aa67bf603fbbe0029c2354 *man/MapPop-class.Rd
19c8795e3147eb6717a70e1a338c2452 *man/MegaPop-class.Rd
d6e4903c3edde5fe0ac517fd9535c9c5 *man/NamedMapPop-class.Rd
29a426d9ac55612b537501b4add75fc9 *man/Pop-class.Rd
95b8f7a1ff36a329210a7a4fef6c825b *man/RRBLUP.Rd
96a934837c9247a1887969d6c5d082ca *man/RRBLUP2.Rd
f21ef20e9442a58540f898ee897f7188 *man/RRBLUPMemUse.Rd
ee77a9e9ae019b9b90941d5b792049c8 *man/RRBLUP_D.Rd
0849ebc5b064a16147e06adb2fefcb20 *man/RRBLUP_D2.Rd
ac8046a5674e817841dd8ec34a2727ca *man/RRBLUP_GCA.Rd
4f1cdd46c2deadf73514956537feacae *man/RRBLUP_GCA2.Rd
fef0fbc04fa44067096b37e35deef74e *man/RRBLUP_SCA.Rd
af96da8c7a0d9eac8ff32f7e6020555c *man/RRBLUP_SCA2.Rd
8f06d16c1e0c2c6f9620fcbec169e636 *man/RRsol-class.Rd
9ee22dac3350fe1c2237f49c5d06ad10 *man/RawPop-class.Rd
3b11e25843186ef3155daa7ad9ebe7bf *man/SimParam.Rd
57614a59940cb71bbb378707076f77b5 *man/TraitA-class.Rd
af7e93d9660f6dc5c6a27be509726891 *man/TraitA2-class.Rd
60c08840559549fd59adf7b5fc643d16 *man/TraitA2D-class.Rd
797fd4c0b41399cbc85b251e4a48511a *man/TraitAD-class.Rd
b511269a570f3a7a58c7699d1ed7f731 *man/TraitADE-class.Rd
334780eec7d4fefa5d5e728c4a7bfa7c *man/TraitADEG-class.Rd
ee6c6debfdd36bcaec4951a3c5375f4f *man/TraitADG-class.Rd
752424c80e9cead070a5c96db7155dc7 *man/TraitAE-class.Rd
a282c81977ca7eef43b1ba655f7e2e61 *man/TraitAEG-class.Rd
97f64df0061093ea150818c61fc2a3f0 *man/TraitAG-class.Rd
153e31b6b786f6c7396047357c84b373 *man/aa.Rd
08fb2f155339df42abc4c9cefe665356 *man/attrition.Rd
3c1d79628594abee5ba6bfe2820349a7 *man/bv.Rd
a51fef468cd2daed15e434ee35a0106f *man/cChr.Rd
63f1eff276978fb7fc0822ff4ecfc29b *man/calcGCA.Rd
ab4366f48fef9c74e856956dc92be6c5 *man/dd.Rd
3fb0939dc02fae27c90687f653e24482 *man/doubleGenome.Rd
4a8716c5137ef826edc670bd4c1b6419 *man/ebv.Rd
0354ca6782f4640ce62168bb4c5fa654 *man/editGenome.Rd
f1a197c4f8cc8e9a44c482932432396d *man/editGenomeTopQtl.Rd
d8c65324aabd41f143066f6164379108 *man/fastRRBLUP.Rd
6cb1e69132ea7c784cca20baccf76e5f *man/genParam.Rd
185ccf2b86824f6f9dde454d50dd98cd *man/genicVarA.Rd
a7f069fde33e1a9f8abcf0b996758e36 *man/genicVarAA.Rd
8eef48851ed58e6064ffc7d1e7043b69 *man/genicVarD.Rd
59dd7bc0a8dda00adb1643580832b215 *man/genicVarG.Rd
031735c9192b032862a36ac923c10a6f *man/getQtlMap.Rd
46b116b185d6fb7c5d7b0ee31630b05e *man/getSnpMap.Rd
42f8ef7916942e71222ff543bb123639 *man/gv.Rd
9c274778fbf4c04b824d7e80b2ac9165 *man/hybridCross.Rd
a0bf94f71531e081d04443a3e3097c8b *man/makeCross.Rd
0640d92a77bf9458967611c048ec00b9 *man/makeCross2.Rd
1e9f601984ae471094d49fe0551914c4 *man/makeDH.Rd
1122a4b4672ea876c25fe791aeb30c4b *man/meanG.Rd
d65462143caf3e96a8b684712bbbb0c4 *man/meanP.Rd
33a99d00127721843b5e4a2c60fb5a89 *man/mergeGenome.Rd
4ae04a1166deede602c6fb55d6688b36 *man/mergePops.Rd
c4860dce5f2d31f5618bd9ef675f48d4 *man/mutate.Rd
ae4f3b5a5e61042360f26ffcc5d6588a *man/nInd.Rd
098f88be2a155d2906d2f1e410b29ff8 *man/newMapPop.Rd
8f48b92a8bc98a6b8960e6439f0ec5ff *man/newMegaPop.Rd
658dd2603a3518a87f83c4551f3d2133 *man/newPop.Rd
185bf1ea6f7ab09d649cd1101093abd1 *man/pedigreeCross.Rd
a398bdcfc27f5959dc9d0b89b21db592 *man/pheno.Rd
c3e189b2e18f6672c4587987ee39f02e *man/popVar.Rd
ca04b6701bec871914b5e99f52919775 *man/pullIbdHaplo.Rd
99dbb29b002265a84166a2411aa0d801 *man/pullQtlGeno.Rd
1139142ea6f5601d703ff0bb4b7e3a4a *man/pullQtlHaplo.Rd
3b6eb31fcf1a87bdad52fb9288cad863 *man/pullSegSiteGeno.Rd
fd0da675abf9f2f760876e5514382359 *man/pullSegSiteHaplo.Rd
2a116c498e810709d3a616ff13f6a562 *man/pullSnpGeno.Rd
5982d80d13caa5996bcc86a8bb44a189 *man/pullSnpHaplo.Rd
c7bc3efdf89354b72d2dedf83924bcdc *man/quickHaplo.Rd
252f5d5d6e2822a461bc70acf38829ac *man/randCross.Rd
3428dee487fed14b6b0ae1e456b48553 *man/randCross2.Rd
b22fd3fd8886af511da7a2135f401f3a *man/reduceGenome.Rd
398ed604c18aa6cf5838ffac45e31759 *man/resetPop.Rd
63ca174dbfc5b302a0f5a16e8d03fa13 *man/runMacs.Rd
d17ecb32febe2b058a8ea12ed691ad8d *man/runMacs2.Rd
9f7ee8cb642c7fce7d83da192172040e *man/sampleHaplo.Rd
c01680dc8f4bf7918ba7a5836044f37e *man/selIndex.Rd
61c034d133826de06fab410848787dd8 *man/selInt.Rd
e4fed9ff9855dbc5ea656206e63da73a *man/selectCross.Rd
d512c431c88df07a73c45ffdbe180bbc *man/selectFam.Rd
ba30feaa217448783066c35d50629379 *man/selectInd.Rd
fa4985291a8ee3f075dec8ea437a92a7 *man/selectOP.Rd
25fc5a792de02b8baedee221ea315aaf *man/selectWithinFam.Rd
0540230a6bfb1a0cd850367ab5b66e1f *man/self.Rd
7fad3e112b88da09e5aa5cf169808731 *man/setEBV.Rd
8887ede61fc5fc5a357d025769648c16 *man/setPheno.Rd
d57f1e986f68bfc655457329d8a58e86 *man/setPhenoGCA.Rd
f09e4a3514128f029d117685ed719572 *man/setPhenoProgTest.Rd
ff3cc00610ce0a9250e96766e3567885 *man/smithHazel.Rd
9b24faa550310e08703e894f355bd83d *man/usefulness.Rd
0937145ba1e35fee49a3ec930544321d *man/varA.Rd
7b3f76288208510586e2ed3881d50e90 *man/varAA.Rd
3f6793dafc60d62f8210da381c189ab8 *man/varD.Rd
b1b31f14fa2bfc588e862abc0a67fdcb *man/varG.Rd
c219ffdc3c777f7c6c5b9b58481bbefb *man/varP.Rd
14ee73305bf4b0834fbf00303cd35717 *man/writePlink.Rd
7267a12e18775a193159f89af98f72b2 *man/writeRecords.Rd
672b5743ae7945dfaca51c6f728df034 *src/MME.cpp
8538ea3f1a25c4ea2751911e6b2f15ac *src/Makevars.in
bee230df6ebea3196c0fe754585c486a *src/Makevars.win
0fbd87b2129f90076ac9cbe3c0d29b3b *src/OCS.cpp
f009530e418520dfdd70c8729a627f3a *src/RcppExports.cpp
0df51bf31db1d146db87c2918b195cb6 *src/algorithm.cpp
7605ca8c267200bd65a36fd07f21c720 *src/alphaSuite.cpp
3ea5fa5fe51978446b386a3e43ad0dc4 *src/alphasimr.h
45e65812a5dc3d481a49976acff2a258 *src/calcGenParam.cpp
610876505ca439dd6ac7a6d714d79f8d *src/constants.h
19bec8e7a4529b63371f5a1bc4e14aed *src/datastructures.cpp
0542140f567dff5a603b4ae050ed007c *src/getGeno.cpp
67d6bf84c189d66c12b89f1e7ca2611e *src/getGeno.h
004ad186eb2b3e64807c952361c6579f *src/getGv.cpp
3bc1990c304c6ba088debe85f870d174 *src/getHybridGv.cpp
baf58b581e523d1a2c10357c6a56eac5 *src/ibd.cpp
a669afe350f9e4af16ab1ce46380b935 *src/meiosis.cpp
d12ccf5b055966ba0df02635e1344468 *src/misc.cpp
bc0c25734b5a070b832badb4367459c2 *src/misc.h
e4a088c01ee18fdb6f60d0b5f3fcf624 *src/optimize.cpp
e6422fe7abd7b30c55ca07dbce1a574d *src/optimize.h
de99601cbd273c390472ba25b2415d20 *src/packHaplo.cpp
32495301a4daf3f2660a1f2ad93d1b4d *src/plink.cpp
6b7e6a65de4909fb16da0c5eab71f5ab *src/simulator.cpp
1c3c458c34552c84c3a70ac3323c3fe2 *src/simulator.h
4a3a208fecda1f56b904e4ca6e75e8b2 *tests/testthat.R
5fab3f8f009828821c9a862de52fe6ec *tests/testthat/test-addTrait.R
a7fb30cd87e01bc677d4dac1c22d2e30 *tests/testthat/test-crossing.R
7388e41ca9468b96d34719303acd35ac *tests/testthat/test-editGenome.R
5e83513609571979a72ad26a02112155 *tests/testthat/test-hybrids.R
5cb19d7769b660f96d79c3cd492ca391 *tests/testthat/test-statistics.R
18b101cdae30f7f6b9631913df0ff633 *vignettes/AlphaSimR.bib
8890eebb84665107d7e684461741ec9a *vignettes/intro.Rmd
41d9bac5bd56c1722ba82f7848b0d0d3 *vignettes/traits.Rmd
