274d2f24376ce8c2797172015e7655fc *DESCRIPTION
64f8b6582a90495d1538b32e78815aa2 *NAMESPACE
2ce7e9547d2bc9f708e03975320a5f97 *NEWS
57c67061a3876a71f120e7fa634cce98 *R/BAYESRETURN.R
5863cb49813b653f8224a9c4b52b2752 *R/DATA.R
2284dfd6c7fe59bc51dc9c9c73210016 *R/DsDn.R
fab185a839eab0f111ef5fedd79b0a11 *R/DsPsDnPn.R
743a4a63a823a89416b8905133b09ee8 *R/Ewens_Watt.R
9adaf760728ce160d31f9c51e8a5413a *R/GEN.R
55114cd587ec8e95226ddee05beaa1f7 *R/GENOME.R
ee22716333ef161342134860e72039ea *R/LOAD.R
6c54d7c8a33b31fb1e0bb56db3ee3671 *R/MK.R
0d7aef518bc10ba6f228d38a3b89e536 *R/MS.R
2504ca29a474b0e47ba1d9e1529c8457 *R/PopGenread.R
09cd7cbe9a02ce92a69bfa2d41c09a22 *R/PsPn.R
1c394d75738d277587c2419b1058600c *R/SNPFST.R
debc0e7063142d9816482cad99090473 *R/Yach.stats.R
dbcd629091d2ad1b32560026a19655ec *R/calcR2.R
fc765ee9edc47c6c60ae6088fc57e1be *R/calc_FS.R
0af7a27c2935b8705be92c6a89fa79b7 *R/calc_freqstats.R
74afb4c1e8a39ca2e9afaa289e4b8b3e *R/calc_freqstats_FAST.R
16cfb560b105eda5e5e21da619e0f8de *R/calc_hwhafsth.R
7c3f4e09f713a5ebc7ed93bf61023f23 *R/calc_hwhafsth_FAST.R
cbb012ad4638b88beedf5f176e2b0314 *R/calc_sxsfss.R
bc12d3fcaf80ffbeb079974bceef0258 *R/check_init_length.R
b8a9a9dc3e95153488ad62e032440c5c *R/checkpoppairs.R
3233d0e1073f09bec06181bcd8b6a039 *R/coalsim.R
3d03f456c4bd3b8d27b9fc0e0db8f34d *R/codonise64.R
212c80a8ceb970c0c1cba797a384ba18 *R/codontable.R
2f8afd42441bfde42efa639e05c99e74 *R/complike.R
8fb3f4da07ecdff99aa33f006d496794 *R/compute_intern_achaz.R
f9261c3e7bd6073b91f3ca3388a4c8f3 *R/concatenate.R
2d24787bdbe234991e5d22f45812b595 *R/counthaplotype.R
919e34d5eb174e07a204466a3a778af0 *R/create.PopGenome.method.R
d1c1466770941e51b3f9b3b4c14db0ab *R/csstatsClass.R
a97720ce02b1225a2db7efdbe18adf84 *R/decodonise64.R
e362e6ae178fff57f2c431f9c88b4576 *R/delNULLpop.R
d79fa619cf122f238c3ddc03e94549d7 *R/deletecodongaps.R
7e11d76e4061069dca3e11b92f0d9a65 *R/ehh.R
ef5e62070fd608f5fa01ef96fc1b0a32 *R/fisherextest.R
ffcce22cff48739e2f6e8b38ae2e6090 *R/fitting_gff.R
cd94ac57cf9af366d8946258313b8588 *R/freqtest_achaz.R
617223bd11331215d95d4e9eec831b09 *R/fstcalc.R
59052286bebef5e82640f6878e016494 *R/genetree.R
9fe2932c7e132f66ae52fb4b4df788d9 *R/get.recomb.R
d8ad98f74ce59203392de6d2fa0de2ad *R/get.sweeps.R
31b300674ae75a3d9ea808ece2c0a3d8 *R/getTable.R
100a8a1b67cd4f210cda523f19187307 *R/get_data.R
caea4b1e084811a8c6ae6fb7faf18479 *R/get_gff_info.R
344182f98798fb6c97df57e5b220c93d *R/get_segsites.R
f329c521b190b46c596e37d38ff9259f *R/getsyn.R
0e97ac9e4f7cca935e428a5f3e7b3fd3 *R/getsynnonsyndiff.R
f001f7fcc59662730cf4402f77e6e5c2 *R/gtest.R
d1df023fee48e0120fce3d89f77c7ef8 *R/haplochi2.r
4ba8318fed20bf8735ba9b6fd45601e6 *R/hudsonkaplan85rm.R
2dd60074c42441c1e25037eaf270dde8 *R/import_export_slim.R
dde11f33fc48afd3e33e1ec757e784e8 *R/init_coef.R
dae6cdf496704d53c5d6d49218b5288c *R/jointfreqdist.R
6ab485fa3b1d6920aa018d1bde9169a3 *R/jump.window.transform.R
38afa6d1886abf598ccf3ed4525ad18d *R/linkdisequ.R
d65faf930a61fbc515798e05080bf090 *R/linkdisequ_FAST.R
f27a741fe0c0ad40c3c1ed89cdc8d9a7 *R/locstatsClass.R
8e925d37eca0c9e65ed2f82e73d0969d *R/mismatch.R
f232e663c56f3bd8ad747a30095f65a8 *R/mktest.R
5325849cf319cd2c45c973c2f31ef3ef *R/mult.linkage.stats.R
9056afb1faab62a55e7618bd7dd8e924 *R/my_math.R
ed779061a8e7ff6a97bb6bfabaf296d0 *R/my_rdirichlet.R
3d8feb2a5325f9f1570ca70a849b7a6b *R/my_read.nexus.R
f42e7239d5c79f48933a346d2aac2691 *R/my_unique.R
3c3a3875935a226a511534f2c55246d2 *R/neuttest.R
a9f24d2dae87e1f616bc1458d358a4c9 *R/pair_linkdisequ.R
e142a7b07f7b989d8c2b2f92d2cfaf3c *R/parse_HapMap.R
ba2ed3bf931654049ff6c4d1cb27550c *R/parse_gff.R
cb198ee8356ea5f4dfa1041884fe4c83 *R/permute.R
6712336a405b501d229375346fc29054 *R/plot_cs.R
15074c1142781a49df107401c1109d1b *R/polymorph.R
8404c48bb337ee672e51724c77f462d6 *R/popgen.R
50d308a74383b8a8670e49f31c8290df *R/probabilities.R
189b38a65cdddf9aca2c02069d64c679 *R/progress.R
a4018c01dcc9b4e46e0a50c086d37d69 *R/read.big.fasta.R
5e7c51f3cd8eae53084839ccfc9c08fc *R/read.ms.output.R
bae6c37e363ab5174be6e02eb8052abd *R/readData.R
75f14e68f9b5694c16f4d10fd8761964 *R/readHapMap.R
90223db6e1fd783ae2be2fa28e956132 *R/readSNP.R
97af4953b07ee7c20f01f4b72d05c10c *R/readVCF.R
3d9031d2787a5d86db05cc393a5760f4 *R/recomb.stats.R
40fd80091b0d1a40200b1e0912e52d0b *R/region.as.fasta.R
22127082e90464e568f952ae6d9cb8b2 *R/save_load_GENOME.R
5d37d7f7de03c459592abe969417b5f6 *R/set.ref.positions.R
6ff1f686ca08aa5655070e331b52baab *R/set.synnonsyn.R
9efe31c04d50c216153d70ea6d29d3b7 *R/slide.snp.sep.R
1f66039f65af477ceb5f23eeb8676082 *R/sliding.window.transform.fast.R
dbabe898b2b9a04f83e16469815bba20 *R/sliding.window.transform.new.R
9a186b3d39f7a161662fa738874c6a02 *R/slidingWindow.R
ba901a4d53c364c7fb7bbb76d1bf39ea *R/slim.R
9b4c3cafe72b5e0645b5f4619d0f3939 *R/snn.R
97e742ce1482b9ce08d52c019d0bc445 *R/sortmatrix.R
3c61eb676cb87478e6e34fa736bbb816 *R/split.GFF.R
2f2018b14914534b809800512cb28f0d *R/splitting.data.R
d90669a63ae3d0af163e9f33478e496c *R/splitting.data.sep.R
dee0cf4199c527ea4ddfe0fab3dc550b *R/sweeps.stats.R
113ab2f159203de9eb5e15a7abddbd0a *R/testparamsClass.R
95b69822023aaeebdb1dbec19aa5048c *R/tn93.R
ec2335b81e0ca9606539f43a58094ceb *R/update_slim.R
97f120ae0313b21b53fd9b1bcaf51b46 *R/wall99bq.R
39437ab5e77aac260fa7a513ad30556c *R/zzz.R
732c4045695842118e891e200d3999a8 *inst/doc/Integration_of_new_Methods.pdf
c7000ed8795794672ba3f9f844735d8f *inst/doc/PopGenome_Vignette.pdf
7bb8bbd9ae15812a54725bb1965e4463 *inst/doc/PopGenome_classes.pdf
fdfcd61b4b2ba527100b9bb884a07539 *man/Achaz.stats.Rd
616c4220d55e45e13f7fcf8d5155aa08 *man/BayeScanR.Rd
1e734dafd90809e45d67c7dfc9903731 *man/F_ST.stats-methods.Rd
62a6227996f36765ca9086b3ac7e2f63 *man/F_ST.stats.2-methods.Rd
e55f92bf6f485d9fc9f3c4c831f87782 *man/GENOME-class.Rd
0459348be68eb452af09a42ac9d95a58 *man/MKT-methods.Rd
71836172ed6df9ae31c831abfeeb0e33 *man/MS.Rd
e37832757cc54e10cb7b55eababc4420 *man/PopGenome.Rd
451f0460c705fface6bb319c525329b6 *man/create.PopGenome.method.Rd
a8b5aed0202ad610345cda103294ae7d *man/detail.stats-methods.Rd
a1a042fdaee9966aad0bbe74ae503c3d *man/get.status-methods.Rd
27c96570c416030d18926be3190d341b *man/getBayes-methods.Rd
e960b3f99d5d7aa70c01034434720201 *man/get_gff_info.Rd
9c1b02af42c1405e9387a0413750eb91 *man/linkage.stats-methods.Rd
c0ec82a223411affc79c698bb8665d00 *man/load.session.Rd
2e20767d47aa2970446cf5e1c0076376 *man/mult.linkage.stats.Rd
d06eec2ec7155535c57292450e2aed4e *man/neutrality.stats-methods.Rd
0378a5fa1e450d99d30d54a8ae990e71 *man/popGetBial-methods.Rd
661fa3bd61476c6373d47e1dfefd22ea *man/read.big.fasta.Rd
8ce4486c94b77db2eb81128c6f69a676 *man/readData.Rd
bfda3f729e0d9d128f0342ee5d80d00f *man/readHapMap.Rd
afb9330d61cf70f3d8360b4245854868 *man/readSNP.Rd
dc84a4632faf344f92e0dfecdd0d04a4 *man/readVCF.Rd
f458267c464458cd42df802ffe2a0253 *man/recomb.stats-methods.Rd
84e98ab5c04e931fc6cacccf726f2bc5 *man/region.as.fasta.Rd
9f8cbf36688ebc917b193170d3368b72 *man/save.session.Rd
8c2c7356ef5be8e778741f39e4bc88ac *man/set.populations-methods.Rd
7342772b421ad31bd29e6d7cf1533247 *man/set.ref.positions.Rd
aebceac9026161f9c2abe3d059ac3457 *man/set.synnonsyn-methods.Rd
19e648c02ed6603f9272c8f0eea4b659 *man/show.slots-methods.Rd
a84340a2c592868cb395373d6f8057d1 *man/sliding.window.transform-methods.Rd
24c5d1e05c9dde6e2acff7de97b7aa55 *man/splitting.data-methods.Rd
2dccd2681d3c3882fd67de54930541d9 *man/sweeps.stats-methods.Rd
9593f057b04f59444d38e697af6b38bd *man/test.params-class.Rd
1d4885fe87566bbd1ea6b6de19f208ba *src/C_get_sfreqh_C.c
e55e146839bdaa68f3e4a63c5e2094e3 *src/CompareVEK.c
f96afb5c8c27be77f2c3dee904e52044 *src/Makevars
6c0c150c8fe5eb7a20fb5838123b3edf *src/Makevars.win
c3ccdc863436adcf9b10ca63f07ce18b *src/R2_C.c
5e01adf0945e8ebb43838510ad59f14a *src/ap_pop_C.c
dec26861576e75aa15a82e2d43a8287e *src/ap_pop_ancestral_C.c
7dd3eb130229a466a6765b5ee4847aed *src/code_nucs.c
11b79be222d5f3d3fb9a4a07d8257b98 *src/compute_FREQOUT_C.c
97ab045fb39615bfda242a07fc1e7458 *src/compute_FREQ_C.c
08e5c120b4f4807f396421e669ecc110 *src/find_lines.c
e7758633c6fda62687c5eaafa4c47984 *src/find_windowC.c
b284bcb367711dd8b25eb1a977c57fc1 *src/fittingGFFC++.c
de41b7d08bb6f93925d2dd58473a299b *src/get_dim_fasta.c
56a647afea7359049afb4e4199d131cd *src/get_gff_info_C.c
eb506a25f20c860a60cd7039b2e73474 *src/get_ind_fasta.c
9119fee1c5e8c2e1b9d6933380ab3cc7 *src/get_segsites_C.c
9990c3bea53bbd265abc50277a146d31 *src/makeBial.c
90a416f79dba793dbaf574792405e846 *src/makeBialMatrix.c
7752666b68f703adbe6ee2c3ab6056ef *src/my_match_C.c
aba13a3883d7d117af33a6d8fe8c1ed1 *src/tabix/bam_endian.h
a9f135cf6c369a13d43510eaff9c983b *src/tabix/bedidx.c
6f0fe24983ff2ccca4a47dd613f7f60a *src/tabix/bgzf.c
b852891557f8a6122767146864052ac2 *src/tabix/bgzf.h
ebb10ce44fe49a7a02dffdf2e2b47a6e *src/tabix/index.c
48cd8fc534ffa1468ad3a66fcf280712 *src/tabix/khash.h
3a0bd3ecaa4cadf9ab943482ade4533f *src/tabix/knetfile.c
18bd43af93c7b0761a29bbe2ff12f17e *src/tabix/knetfile.h
9ea63cefa7d19cd57d52f41b756cd052 *src/tabix/kseq.h
5fbd36095602ed2fd64556d5f4da27f5 *src/tabix/ksort.h
2390a7c05cb76d4902149f4b9c2653bd *src/tabix/kstring.c
b22824b2f9f72abb22fa6c24ac74583b *src/tabix/kstring.h
9ea09d7361b319cb5e4ca2d752a70e9d *src/tabix/tabix.h
740d5da8ed3fa8021460ec41ff3105bb *src/verify_ancestral_C.c
73baebef6d6ffc576fd8be184c579943 *src/whopgenome/dynstorage.h
96377e62a16a8973858c28fb39482ad1 *src/whopgenome/rdnapp_Fasta.h
859427ad23c82d6480aa996af3382710 *src/whopgenome/rdnapp_MAF.h
4d8adde4109b2d910c8622cc5b60e85f *src/whopgenome/rdnapp_MEGA.h
1cb146e566d242d448a5f7e6a786b426 *src/whopgenome/rdnapp_Phylip.h
0a7764754e568905c5ae3e1779f5aa18 *src/whopgenome/readdnapp.cpp
ce38794789ad110d3b0c899fefb22bc9 *src/whopgenome/whop_r_dataframe.cpp
2d5c3afba206a76f95ab0c1d1296232f *src/whopgenome/whop_rsupport.h
0991193240d7197b8fa3d9ae84a99556 *src/whopgenome/whop_tabix.h
006540b056b71696b3df59f7343ea44e *src/whopgenome/whop_tabix_internal.h
a2074b57a6c8791dd88600906318d952 *src/whopgenome/whop_tools.h
107253919b0666b7f8d34f0516a4f454 *src/whopgenome/whop_vcf.h
228d056a5448100b4429eabfe9e543e2 *src/whopgenome/whopgen_codemat.cpp
3d12dd5dfb83fdd37696c86db10acd42 *src/whopgenome/whopgen_common.h
4799a857e461409b1cf41cc9683e4b6d *src/whopgenome/whopgen_filtering.cpp
77421d6029dc86da633657df50aa7317 *src/whopgenome/whopgen_main.cpp
f2e76e7e8a88b490f2315a59c9561bc1 *src/whopgenome/whopgen_read.cpp
082297bcf8b51711c52a401c0ee7faa3 *src/whopgenome/whopgen_region.cpp
765736d5761232303820247417cb8752 *src/whopgenome/whopgen_rsupport.cpp
d43ff8593c4195ca2843c505c29e172b *src/whopgenome/whopgen_samples.cpp
8490411485905081ebe96e74bc793a9e *src/whopgenome/whopgen_tools.cpp
4125d12d0378a63038f5d1736f17078d *src/whopgenome/whopgen_vcf.cpp
0ec967011dd7bff999e7e3aaa4446d28 *src/whopgenome/whoptbi_Rifc.cpp
69346a4249e1b38363f382048372f9a5 *src/whopgenome/whoptbi_info.cpp
7703ed3c7b19ddfa03eb339a21153ecb *src/whopgenome/whoptbi_main.cpp
9f269625102fc82ee35f51ce7a899c5f *src/whopgenome/whoptbi_read.cpp
f99ec144d86b11c5c2fb3dc89ed483e1 *src/whopgenome/whoptbi_region.cpp
fc373dfaeed74c9a8b326eec43885ad5 *src/zlib.h
ae3bbb54820e1d49fb90cbba222e973f *src/zlib/adler32.c
6a0331bd872c8053af4bfa357fbd5415 *src/zlib/compress.c
1339c92938d2594a6eecfa21c374d1b6 *src/zlib/crc32.c
f28d16b67efecdfafa0d816a7d982124 *src/zlib/crc32.h
376172b54d21ad743ed6c3faf1430011 *src/zlib/deflate.c
a76eecb979102fa97ffb710f142ad2f9 *src/zlib/deflate.h
29d02cff161bde3e4e717b25a2ab7050 *src/zlib/gzclose.c
12c9d0c48f36172f7294b335bf02b0fc *src/zlib/gzguts.h
b299fbea2ecb0ff33a0b3cf3c6b33f3e *src/zlib/gzlib.c
d0e145140eefec33fc546a32c7e4cc21 *src/zlib/gzread.c
9142e7a574dfa1864856351937df8eaa *src/zlib/gzwrite.c
4b7a7db0fc95f2cc50361545857a8550 *src/zlib/infback.c
acbe5c3d4bf679e6a41eed4569abfa93 *src/zlib/inffast.c
f3669099d3f571dbc0426401ed5f50e3 *src/zlib/inffast.h
7fa3e91804601b6618c915b76a8dc332 *src/zlib/inffixed.h
dfd2e1549dd0b2f28921e8174d8c34a8 *src/zlib/inflate.c
8f1b05cdf36a269882a955071b140162 *src/zlib/inflate.h
111edb79f982a014876b4a830372aed2 *src/zlib/inftrees.c
ec87be89b9bcca8ced80a70f857e823b *src/zlib/inftrees.h
1cb01bcc5130eb867b23d6cc38745b4a *src/zlib/trees.c
51fdcb3e2ccf60ca13c06920c89296a3 *src/zlib/trees.h
e62eee8757fecfc2cfbf2dda8956097e *src/zlib/uncompr.c
715f60ade557b8e60b5519e38b9e148c *src/zlib/zconf.h
e641130196e5448aa64a116181c459c7 *src/zlib/zlib.h
e254a40578ee9bf35e7d7184cc658fb6 *src/zlib/zutil.c
0b31d0c893d2f609cf5d5833e3c0b21f *src/zlib/zutil.h
