b5c959f01904c56fc40d76abdc1b1df9 *DESCRIPTION
fa1203cee9729942c5d01a4001d65c02 *NAMESPACE
3e840db6bd1e7d28e6f883eb7e3d2bf2 *R/DEploidR.R
bc37f4573416acabe3a5073b9f75cbf9 *R/RcppExports.R
c9970eaa1da4a0a31aa339b76ece4b72 *R/dEploid.R
c120d3b9f5054e36a1eff699a72e65fd *R/dEploidPlotly.R
2e554abc31fdd013a0d5a95a820a1c65 *README.md
f65e30bb648f7349c04f521468d3e06c *build/vignette.rds
8233fb7a16b716421a81675a362123b7 *inst/CITATION
cba7f4e7481f4049fd8caa02ab326aec *inst/doc/dEploid-Arguments.R
45d2cef03f787f8e4a4213567a39cd7b *inst/doc/dEploid-Arguments.Rmd
d013f0d18a6a49295ecb2b29e59598e2 *inst/doc/dEploid-Arguments.html
2cad08193815864d8a26f8ac768ef199 *inst/extdata/PG0390-C.test.alt
07eccfaeb952de9e0460bcc12d457b22 *inst/extdata/PG0390-C.test.ref
cdc601c1d8d4eec2bc80512eb8ee6b6b *inst/extdata/PG0390-C.test.vcf.gz
a18778772a21e2614f37800bf1e3d22c *inst/extdata/deploid.png
d5122a085c423ba8bdeff856b6a6f768 *inst/extdata/labStrains.test.PLAF.txt
a865c12e4c27f049106f134b695a0b82 *inst/extdata/labStrains.test.exclude.txt
58b29caf285f90a0900f2b04443ec465 *inst/extdata/labStrains.test.panel.txt
38a0b3d0bd6952b5face2cdb68370925 *man/DEploid-package.Rd
281d55ad310144f7d9779d4ba9a4b597 *man/computeObsWSAF.Rd
a7dec0cf819f7b734569760e93f0a0df *man/dEploid.Rd
d5231f506efc96d0257c95faf60f4c1a *man/extractCoverageFromTxt.Rd
54c88b77f9b79b1402d0d5b932416e90 *man/extractCoverageFromVcf.Rd
3b94e99a025a308b8e6df581b33125b6 *man/extractPLAF.Rd
64bca01253dc1d96ad88606e4af1007b *man/extractVcf.Rd
90ec3a7f0a1c09b7859391a073b063a1 *man/haplotypePainter.Rd
56b53ff8f140b8fad882a7405e156413 *man/histWSAF.Rd
8e24181fd012cce857cb89659bc496b4 *man/plotAltVsRef.Rd
4a719f9ddd20b1604d7ac33f64c9c251 *man/plotAltVsRefPlotly.Rd
2e3ce3260c47e734c3d0aa28cd153abf *man/plotHistWSAFPlotly.Rd
7939b97259f91d8bf94d58435a2c2dea *man/plotObsExpWSAF.Rd
ab1b443b0af8bf81d85e063f3556e80f *man/plotObsExpWSAFPlotly.Rd
f022a17d3aba800ec29c8bc84f604a47 *man/plotProportions.Rd
896f6c0918ae703f90946a82ccc23dbc *man/plotWSAFVsPLAFPlotly.Rd
b3a1e2e14fde6c8331b95ddad3253a31 *man/plotWSAFvsPLAF.Rd
84e19633e468db778b959bee6bde90a4 *src/DEploid/chooseK.cpp
3161cb5ed21dc853ed2c5e0f121fb4e4 *src/DEploid/chooseK.hpp
c3adb6d6823db1b19840143fa58ba349 *src/DEploid/codeCogs/asympt_expn.h
9c4cc52f7742819084a453fef38e0288 *src/DEploid/codeCogs/errorfn.h
09168cd629e28c9591a8b7a276acc1e4 *src/DEploid/codeCogs/errorfnc.h
23d6452106b5561002ce0c10f3804ef4 *src/DEploid/codeCogs/errorfnc_exp.h
dd8dd57dee7f3c8d2b45dbf03e8c5163 *src/DEploid/codeCogs/expx2.h
2f905303a07a8e69bbd46a3eedbf34eb *src/DEploid/codeCogs/gamma.h
5a369c47236d061678c4e2ea954a0866 *src/DEploid/codeCogs/ln_add1.h
820a1ecd84ab39df9204e9b1e59b8873 *src/DEploid/codeCogs/log_gamma.h
830e4770c3ef6b5afbd962bc89786b34 *src/DEploid/codeCogs/logbeta.h
4d3024ecd41e77f173a95d7ff2bc55ee *src/DEploid/codeCogs/loggammafrac.h
89734db2e095786f0fd83d721b0ee208 *src/DEploid/codeCogs/loggammasum.h
ae7e51c1268072067ffb113c577f5bb6 *src/DEploid/codeCogs/machine_epsilon.h
ccec2bc4b1d1436416711e52b16ef3e0 *src/DEploid/codeCogs/mersenne.hpp
2f8d156a5ffa6d1f3bb302af68b59090 *src/DEploid/codeCogs/poly_eval.h
3ba8122e26b392c415edec3c7b3ac888 *src/DEploid/codeCogs/randomSample.hpp
94c33b48dee38eb7bdc87638e718e09e *src/DEploid/codeCogs/stirling.h
a3585d8d0b267c7076cc835be837bf5f *src/DEploid/codeCogs/xsub_ln_add1.h
e533dc8a8b48704bf4ad86c343602291 *src/DEploid/dEploidIO.cpp
a2d485a3483b582a246583cf190ad4d6 *src/DEploid/dEploidIO.hpp
47c3ccc7c67427b403bf67412c19825c *src/DEploid/debug/mcmcDebug.cpp
f2bc5a44cdf66b26c3657897be89c337 *src/DEploid/debug/vcfReaderDebug.cpp
8dcfa788d198f7ec925db44b8f6cd61a *src/DEploid/exceptions.hpp
b5278316bade962a54f8d24dad9f0497 *src/DEploid/export/dEploidIOExport.cpp
77d1c185ac7c32ebeb53a752a7eade23 *src/DEploid/export/dEploidIOExportPosteriorProb.cpp
5ad831f40f72baa65459a5a30c9c265d *src/DEploid/export/writeMcmcRelated.cpp
2bfa262ffc355802a21f5c435c9124a2 *src/DEploid/global.hpp
7fbc338309ac38fefcd64b04bb903e34 *src/DEploid/gzstream/COPYING.LIB
d632447d46c9b1d6ab0103de7a665034 *src/DEploid/gzstream/README
ba512bdbb2404b95b4303f226f9d8ef8 *src/DEploid/gzstream/gzstream.cpp
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72767782fc756a7855f92361e949b499 *src/DEploid/gzstream/test_gunzip.C
ade409024dc2511702be4b25cec98304 *src/DEploid/gzstream/test_gzip.C
a2f7507870a6d0a9c857cbdf814b77c2 *src/DEploid/ibd.cpp
e6a7d41b98a99f5d0937cea7b397e90f *src/DEploid/ibd.hpp
be3900f55cf510e4011fc09aebbd469e *src/DEploid/lasso/dEploidLasso.cpp
70b70d4a42bfa2673e799f8eb6697576 *src/DEploid/lasso/dEploidLasso.hpp
8d7d21d3dbfd7eeda6783eeb172dc00d *src/DEploid/lasso/dbgmacro.hpp
b1243a1e6ca579543c49bc30cfd79dce *src/DEploid/lasso/lasso.cpp
e77974455e21e3fbc36f3d66a1464cc3 *src/DEploid/lasso/lasso.hpp
a60b6085198e7396d5392472e7d8f3ad *src/DEploid/lasso/lassoDBG.cpp
25838ce7135152cc75c3f07910eb49da *src/DEploid/lasso/src/dEploidLasso.cpp
70b70d4a42bfa2673e799f8eb6697576 *src/DEploid/lasso/src/dEploidLasso.hpp
8d7d21d3dbfd7eeda6783eeb172dc00d *src/DEploid/lasso/src/dbgmacro.hpp
03b4b4ed9f59e5b323be6709dee187dc *src/DEploid/lasso/src/lasso.cpp
46061222bfd5d5fdc6c013b5bcf6a527 *src/DEploid/lasso/src/lasso.hpp
a60b6085198e7396d5392472e7d8f3ad *src/DEploid/lasso/src/lassoDBG.cpp
84dcf4a918f976f8a6fa59e2de905949 *src/DEploid/lasso/src/lassoOut.cpp
50874c065ef3eaba52c681995a3d1ca2 *src/DEploid/mcmc.cpp
b1f3be122f6b92974cf7f6d0e1f90c5a *src/DEploid/mcmc.hpp
9a113321923c7722d06dea76c943768d *src/DEploid/panel.cpp
89e3bb9bee61958000bdd05113ddc9dd *src/DEploid/panel.hpp
a6765fb4db45924b1d3b2d7ed6d5b0ae *src/DEploid/random/fastfunc.cpp
d83fcae2e9ab95e7531917dc5aa25ce5 *src/DEploid/random/fastfunc.hpp
d7ee5456f67c91bd7da907001965dd72 *src/DEploid/random/mersenne_twister.cpp
5c40c783d72b75abcd7a5264a74d4c1a *src/DEploid/random/mersenne_twister.hpp
9563d50543ff7687795b66906c787a9f *src/DEploid/random/random_generator.cpp
ad21a81bdcb9369d4c7f9b2d54cb37be *src/DEploid/random/random_generator.hpp
21fb5b8d81f87fece7386042ee93080f *src/DEploid/txtReader.cpp
d91e32b2cbdb99b7a4de19a1e300bfcc *src/DEploid/txtReader.hpp
bb5c0c16b193c8d23e6ca749f9caa120 *src/DEploid/updateHap.cpp
3c04f03a2e9e8c022ff6138ce0f5dd67 *src/DEploid/updateHap.hpp
177058e9bd41a4d0905b8cc8b6a9fa50 *src/DEploid/utility.cpp
20acd35532218e8d275c8b1aff30df36 *src/DEploid/utility.hpp
65330fa96e44f48a7b85c73750f0b108 *src/DEploid/variantIndex.cpp
6d4f3e64f6db7dbecaa70d26eec74aee *src/DEploid/variantIndex.hpp
4aebd4559607f84d5e7f3e99c022fba2 *src/DEploid/vcfReader.cpp
09fdba583594f73c14cac4b80a839bdd *src/DEploid/vcfReader.hpp
4fcc6abf699c38809e78ea43044071c1 *src/Makevars
4fcc6abf699c38809e78ea43044071c1 *src/Makevars.win
a3d47b19daeca079c106efa302c90c1b *src/RcppExports.cpp
d8978e86ef248b69b5cbacdf772d9947 *src/dEploidr.cpp
9ba547f203040a5f99bd9e00394a5d2f *src/init.c
d9780788cb9e10ae63d0cfb4ce81703d *src/r_random_generator.h
9d238cfbf5bb3246fdfe3450d0a4783c *src/rvcf.cpp
eedb9b59a5a966b63e9e82308caf7349 *src/test_exports.cpp
e095660d571c0f3ef91ce1211ecb7f76 *tests/testthat.R
2e864ff1e075a03cfb767d0a72847d40 *tests/testthat/test-DEploid_tools.R
01ca5f935513941e0e097f4bdbf3d02c *tests/testthat/test-dEploid.R
f66b335af2d854e56592824fc8df7a0a *tests/testthat/test-r_random-generator.R
45d2cef03f787f8e4a4213567a39cd7b *vignettes/dEploid-Arguments.Rmd
