328be64a593e636e67053208e6692c9f *DESCRIPTION
4096bf9357925ac78a9269867d22ce13 *NAMESPACE
d9b24765513a5b74cfb5cf6ff8db1b1b *R/compare.R
df945e42bbb39d5fc2dc5bbee553f1c4 *R/contingency.table.R
bfc150b940f5baadc2840b29280a2ff8 *R/convert.R
9765cce5b02977a3cb2c66999acebebc *R/glm-test.R
6dd197d98638e12f77be61353959f6ae *R/imputation.R
052f0164a4ab3cade617f78d84cdaef8 *R/indata.R
b2215934d9885fa1edd6559648d4d823 *R/ld.R
72d6ef1a8f33a9d865f1df258d80bf6b *R/long.R
95a11465a8a76a3154e3ac75841b8dd7 *R/misc.R
dd1012ac282b3b0d49564b981d93a541 *R/mvtests.R
4508512a64cf07083c635d44578c432d *R/outdata.R
6916e7230370f717753b8b35668ee68b *R/pedfile.R
e6183e2c748b2cb2f3378db9eca519db *R/plink.R
261d5e16b29db712ab7e48d13078b6db *R/qc.R
572f03a6821497f3847106e25164d847 *R/qq-chisq.R
cbbee5af315becacda7c168f01103b51 *R/single.R
6a2d75080aa3609a64d7af5e4c3d3bab *R/ss.R
5a89f3f56ebc1882081ec1091653da38 *R/structure.R
e8e4b4a760c5fdbc46647bb8c953cb82 *R/tdt-single.R
b4ed3c0b364419b210560e0ed3071c69 *R/xstuff.R
5c8df586fbee4ca597b5577b1c161e82 *build/partial.rdb
adc376a033d97f0da83fe6806d568b6f *build/vignette.rds
5f75bd95542cbd27143a5b9b07c6cf50 *data/datalist
3518878cc757f4e4ba6998e416f824e0 *data/families.RData
690a050ced3fa994ef2b6b4508465d71 *data/for.exercise.RData
497fcd532b5c2bcb082a0dad7ca0d44d *data/ld.example.RData
a70aed3eccb484a78253383193e76cf9 *data/testdata.RData
feb38ca2b86e34a57b8ad22596f40279 *inst/doc/Fst-vignette.R
63e197f2d67226a15a2a822ca3903e04 *inst/doc/Fst-vignette.Rnw
965c5dfc8ffa57f835be237bf66ea626 *inst/doc/Fst-vignette.pdf
2b18ba9fe49149f2b38734c8d46df56d *inst/doc/data-input-vignette.R
aa07118d3694e3e9c21be242007f1939 *inst/doc/data-input-vignette.Rnw
0358e7bfbc0e4cd38bfaf516adb9b1c9 *inst/doc/data-input-vignette.pdf
bf5ea3474685df0fe3e38529a8b2f382 *inst/doc/differences.Rnw
ec8f8bf26f744017cda75f7fcc45ac55 *inst/doc/differences.pdf
eb728ebaf4b37436e6e9fc5a7c6581d3 *inst/doc/imputation-vignette.R
03d946c0052011c6dfa84b76cafab178 *inst/doc/imputation-vignette.Rnw
0aeb1057c2eeda688967302edf4e3fdd *inst/doc/imputation-vignette.pdf
c5800d13b85a0867424dd2a31823a15c *inst/doc/ld-vignette.R
821ee21480c7d408a6b637397932aab8 *inst/doc/ld-vignette.Rnw
2b5bc334213bdd4864b46125061c9cd4 *inst/doc/ld-vignette.pdf
4ce12c0999bd0f88f4cc71d5efbe1c76 *inst/doc/pca-vignette.R
487c6e00c428a208f7f5ba56c4a3b4ca *inst/doc/pca-vignette.Rnw
d451cae2f918a3a294861fe777815db9 *inst/doc/pca-vignette.pdf
fbc31feda154755f76eb07a7143aec23 *inst/doc/snpStats-vignette.R
8538706c20e707dddc33e4e2124c29f8 *inst/doc/snpStats-vignette.Rnw
7ac98126e89a9cea3cedd90cc14d653c *inst/doc/snpStats-vignette.pdf
d25446311b332d385424554278286a46 *inst/doc/tdt-vignette.R
0119d8bb634c307b78aa886853c939ef *inst/doc/tdt-vignette.Rnw
9e6a9df481059fb24d4c270a0c7d69a8 *inst/doc/tdt-vignette.pdf
01ab3a133c082645d1bc8bb05fa51c29 *inst/extdata/mach1.out.mlprob.gz
5a7c1a9558c4212cab7b570b73f6d100 *inst/extdata/sample-long-alleles.gz
69d3f6b4bd89f6422eed1d4a41ca965a *inst/extdata/sample-long.gz
e0afd876c83056ea3294f7903c20b7e5 *inst/extdata/sample.bed
71d452624e9dbea681f7350391e643a9 *inst/extdata/sample.bim
631cbdbb5ee368ba4e3a5ac3325c9081 *inst/extdata/sample.fam
a53a9f7132c429f6a0106fa0273f6d3f *inst/extdata/sample.info
ead884209ae336f9e246972f89653a53 *inst/extdata/sample.ped.gz
14bb98e48d3c00d6a652048154d16f5c *man/Fst.Rd
46650ffb16953f1adb3d87b3ea2c9df2 *man/GlmEstimates-class.Rd
d57df00186ce5065f8daeba3bba75213 *man/GlmTests-class.Rd
c02df4306d7e5b8164095ff1d6f0be54 *man/ImputationRules-class.Rd
958ddc186ae75769330b3668486adb82 *man/SingleSnpTests-class.Rd
c6a8d6ed28a51c87a7c2acdf66dc5a01 *man/SnpMatrix-class.Rd
0c1b9944e4d2de776bb3cbf489f065d7 *man/XSnpMatrix-class.Rd
24d1d0ef68009506fbf4af62755fb545 *man/chi.squared.Rd
f7ef183298eb4f361fedbd4b0ff3de9d *man/convert.snpMatrix.Rd
1e9f14bc2562f0b3ec61769f75fbc9b1 *man/example-new.Rd
8d99d4f9b07569e1b5410dc0775952ba *man/families.Rd
c2b065877c8ac5e3a50557650b4c9ca5 *man/filter.rules.Rd
a504c567d0e3dff12054ff0a4bc54d27 *man/for.exercise.Rd
e851f425fab3d18984977a677351b7b6 *man/glm.test.control.Rd
db206d92adc5bfd1dca570d0f25d7e5a *man/ibsCount.Rd
231272a81a263dd0efdd2afd6a01acdf *man/ibsDist.Rd
f6bbaf000b3e8999fcb997c14802016a *man/imputation.maf.Rd
a63f917967843903a21085c0b6ae2d37 *man/impute.snps.Rd
d8782513656c0cb2967bd24089c2bfae *man/ld.Rd
cf1fbb9c1d35c1c0bc0f6fbc33308984 *man/ld.example.Rd
529e082357eb99b400eadda2c309f976 *man/mean2g.Rd
b0ce7ae06ca230bfe8d4ab0ae89b6096 *man/misinherits.Rd
0f9dca3cff161ede3f9c86cf92c95213 *man/mvtests.Rd
420d0b170e0d22a7e310b67b3230ba67 *man/plotUncertainty.Rd
b644a47afefe65f63303b2ecc6194dd0 *man/pool.Rd
25db3423237e9cb5f2e421a26bfcedf3 *man/pool2.Rd
e50193357d96de7a5a176f210a4eab1a *man/pp.Rd
dbc48ffbf8882ef7865b354f0be0ebb0 *man/qq.chisq.Rd
f3c62d69b3bdac56482cd2bf55897b90 *man/random.snps.Rd
9abc952fe9e3b73e74960450c91a3ff8 *man/read.beagle.Rd
1052efe9a14fd9d982c2639cf3f55a2d *man/read.impute.Rd
e5bf67736bd30acff45a606840dc9556 *man/read.long.Rd
9772a38460e3d6dfb712dc5ef14b0f91 *man/read.mach.Rd
fb0d16b77a9aa7091023b22df191d88c *man/read.pedfile.Rd
6c9112658c6a935187b963a7f3fe25be *man/read.plink.Rd
02058e58bf66aa3903b9f93d09430ef1 *man/read.snps.long.Rd
6f59e271d58ed7b40540889b40eafe8b *man/row.summary.Rd
069a4dd364095d1c9e826fbfbeb31bc4 *man/sample.Rd
4ada5ef29000f4f585cfd2767c4f13d6 *man/single.snp.tests.Rd
d840258bc25904807e9541ce46a38aa1 *man/sm.compare.Rd
a4241c118296927c99e1c0a9625d1732 *man/snp.cor.Rd
2cb5c4e15069da430115a7f218fa5af9 *man/snp.imputation.Rd
3a4bdd36430ff453e724918d14a22ba0 *man/snp.lhs.estimates.Rd
fd1d6247518309ea7520bea733738979 *man/snp.lhs.tests.Rd
db7913c486bb365f8e08f23a4a574614 *man/snp.pre.multiply.Rd
0db0915ed5bb2458c82b224f0ace3219 *man/snp.rhs.estimates.Rd
369e2f7b9c3f460f06b82e2705aa61e2 *man/snp.rhs.tests.Rd
fc98b0405c257303827c0f2ca4b7e415 *man/snpStats-package.Rd
708391856ee7c80bf6660bd9e1177fbe *man/switch.alleles.Rd
e4007d9e435981446dba41adfe92d907 *man/tdt.snp.Rd
d74d1dd6c71730d9091cd69917b0d875 *man/test.allele.switch.Rd
e6423ac2b52784129df2cb50a7575ffd *man/testdata.Rd
9b1b3aa2255a46797bdba8c2b2d4a31b *man/write.plink.Rd
38592e798d2985b4f2182d4c486fd432 *man/write.snp.matrix.Rd
7bbb8b5bb11045192abdcc8eb46cc58e *man/xxt.Rd
aab2810b1c303b15d0ba926be48ae019 *src/Makevars
43552646f930f666243b3af024c36d79 *src/Makevars.win
d7e7a0f9af05059abfe3104513eeb953 *src/Rmissing.h
9d39c10891f4008c47530435e174a20a *src/Runcertain.c
8b29ca2856031eb9439adeaa3505711f *src/bind.c
f66be84963aa24caf3c14b5909444051 *src/count_gt.c
c644c8db78b122bdea5da8a0957345fd *src/covwin.c
7724c37ae2e941b95ad04d73ed87e43d *src/covwin.h
4d1cfa258e52f3f91b09afdba248fec5 *src/crc32.h
fba9bfe6045b2486b1f3b13725c0b4f5 *src/force_hom.c
3fc772d7fbbe30c8d42dcaeb4407f533 *src/fst.c
070eddad086f8b7e16d80ec28252461c *src/glm_test.c
265877a19d8a1cae5b01567a507ff716 *src/glm_test.h
0c81a4b1eee4473511b733ab2a3e0988 *src/glm_test_R.c
ce080828640f62cd9ffd53ec14fab23b *src/gsl_poly.h
6abd9cc33f02cb69555dc042a5fc22a9 *src/hash_index.c
b7b4a4e05dfcb7031661552a5c653396 *src/hash_index.h
9f4942e85bf53e67c42292db28733e20 *src/hphase.c
fe9887327c6b88a1a508fe1b09cf5084 *src/hphase.h
8d111185aa2d89d0766046f13fa95cde *src/imputation.c
3e7d505e24aaaee0aca4a61d0975e474 *src/imputation.h
a6c90e82dab3538555588a9675de6c57 *src/in.c
d62bd15343790a1c450d636f41e5d822 *src/input.c
cb59bf7999e5f01775b262fc66a78d58 *src/invert.c
684fbc0422e48392c41eaa8c5d911301 *src/invert.h
479dd5b130091d6d46d4b0b3429454a0 *src/ipf.c
477fa28b948fe2249f790dedd0e0beff *src/ipf.h
a9d6d43253d11f3fcc9f57aaa0676d71 *src/ld.c
31dd3ad3665b8d6ab56b89d57dbaf7b3 *src/misc.c
6ab06ae2708b006165ea6dd0601c66f7 *src/mla.c
4bc7924fa438f2dd1f34af832ed8e71b *src/mla.h
7aa9a7833d7e1936dd0a769d3281f4f9 *src/mvphenotype.c
6122b307a3b68dc84e0aa67d872a7227 *src/outdata.c
f14466d02f133bab8f0e94c02617a38a *src/plink.c
b253d4b9be1cfa3dc04bf3fed4d98d24 *src/read_uncertain.c
5ebe57e163a441fc168fc2055d08efe5 *src/readped.c
8c57d654e11845380827749fa73882d9 *src/single_snp_tests.c
d5d95495c515f6e265c99469bc789ee0 *src/snp_summary.c
b30b87dcd7384388cf22b14c7944d074 *src/snpmpy.c
a84663eba61a45b0b5bb4d91297ad847 *src/solve_cubic.c
e041cdd7f39bbb6fafc9c8d1eb895f5e *src/structure.c
8fbd8175958d7d8d010c85a58bf5fef8 *src/subset.c
b86a84300dfae0772f48872f4d759771 *src/switch.c
97cfff769eb81351dfee13dc786b2828 *src/tdt.c
caf4a651f20a05cdc9e45db79b2c9b12 *src/testBig.c
601073035417022f72b45a5817b32464 *src/uncertain.c
257a97dac048cb8786aa6a578cb9d1a0 *src/uncertain.h
63e197f2d67226a15a2a822ca3903e04 *vignettes/Fst-vignette.Rnw
aa07118d3694e3e9c21be242007f1939 *vignettes/data-input-vignette.Rnw
bf5ea3474685df0fe3e38529a8b2f382 *vignettes/differences.Rnw
03d946c0052011c6dfa84b76cafab178 *vignettes/imputation-vignette.Rnw
50c294206b92b93ded4a63a5c23bba10 *vignettes/index.html
821ee21480c7d408a6b637397932aab8 *vignettes/ld-vignette.Rnw
487c6e00c428a208f7f5ba56c4a3b4ca *vignettes/pca-vignette.Rnw
8538706c20e707dddc33e4e2124c29f8 *vignettes/snpStats-vignette.Rnw
0119d8bb634c307b78aa886853c939ef *vignettes/tdt-vignette.Rnw
