c8e5010864f3f85922d09c572bb122d9 *DESCRIPTION
9d4600243fbf5a0a68cf9d51b6e622a9 *NAMESPACE
570b14fec11ca47a05a82ed3b2051e1e *NEWS.md
9ac689d4f5d03173017e5fac49705640 *R/Fst.R
565cca223dd047e49ddc939934b04b02 *R/LDpred2.R
0e030629dc6bf4100421f3256c8448ce *R/MAX3.R
024075a2c4fdf6a2d44052133f3b9912 *R/PRS.R
6568ef01c31a2842b62c8d9cbb2efb7a *R/RcppExports.R
96e2fb19881e8a3cfa23f78ff295b844 *R/SCT.R
5591cbc0424a86dec0f221b6efea15a6 *R/apply-parallelize.R
e4b531df48374e034e165d32700e3367 *R/autoSVD.R
9fa5ef12ae89cfbc723375f394a855d4 *R/bed-class.R
bda6c7a98db5413d5d69732c7c84bab7 *R/bed-clumping.R
7cc47f7124ba53ada1ff6e2aa9b57f44 *R/bed-mat-acc.R
3154e19a3adeb5fd7169756c3f729a0b *R/bed-mult-vec.R
9fe86fa32a66fae498439d44cb362090 *R/bed-projectPCA.R
6bb181626c0092e71293f3dcf776c8e6 *R/bed-tcrossprodSelf.R
aab35336740a42aff377f3130301dac8 *R/bigSNP-class.R
66550a5569be9038d57e5a37bd83e4df *R/bigsnpr-package.R
4fba962bfb53fd3479f8895802fa9ddc *R/binom-scaling.R
6c0f40dc9bdb443a16fcbe233acee968 *R/clumping.R
272d263f7af7743b51be67b9baf73672 *R/corr.R
a5a8808bfa933c5cd64a978ee8305d20 *R/external-software.R
e9a7a8cb1028cdfff1ca6f12d953c135 *R/fake.R
296ec561984c3729cd53a55566816238 *R/get-save-infos.R
60a496072d11e7e94d8226e05f8103a5 *R/impute.R
4dd86a68e7a06ab0cc2fed6572db3dda *R/lassosum2.R
5ee22dd9e5932beab747f86b6a02c423 *R/ld-scores.R
86ce31f2f4b8c5b5fb618b3c532c9ccb *R/ldsc.R
3975b44511ebfa2e0f10bbe02f903179 *R/man-qq-gc.R
78b29084e422e38ac47a4467a283087d *R/match-alleles.R
d4165e9b53315c6116bd870a9e802e98 *R/pcadapt.R
87dad634238651282d49d308762e05a0 *R/prod-bgen.R
aad55b9dd3233b50ff4b088eca2fc38e *R/read-bgen.R
72e3efa70a194f5d2916f4df8e5fb06c *R/read-plink.R
ec9e6cb6dbb67dc039b0eb704e8737a0 *R/simu-pheno.R
1af0c82c2e66ae4ee527ef42838aef17 *R/split-LD.R
338753097b2ad40475c071cac95cea58 *R/subset-QC.R
2be896bf8ee56fc2c689a23f83eb4f3d *R/utils-assert.R
63a39afcf9beacfe0fbe1f6e69e18062 *R/utils.R
0b8c44a5615d10511094370247255d03 *R/write-plink.R
8a7c6910eebbb24a2933b9eb27baf0b2 *README.md
cb4924f3573383fca290a0a8e2ca5294 *build/partial.rdb
b6a17477d45da8d606bd64c09c0b2932 *data/LD.wiki34.rda
9d184d741fc6534bcc3b7b3e068e1fab *inst/CITATION
3231ea8757b7656791c3ffbd0318a07c *inst/WORDLIST
5cdf5da8fd1fc9e6593dd582e2a66430 *inst/extdata/cluster1
75aa2415b3d4d90646e7ab62cac04183 *inst/extdata/cluster2
b755fb8b6e309a766908dc94302446c9 *inst/extdata/cluster3
1693159abf1329e3d8a755e0afd9463e *inst/extdata/example-missing.bed
2354c8ca3b35e624d72d59b731810611 *inst/extdata/example-missing.bim
6c814e0efd97822a06bf40008cba0519 *inst/extdata/example-missing.fam
7960ea9d91206f4943b62064d8e3cd99 *inst/extdata/example.bed
5865c5beb293af9e15ba050c98c907a3 *inst/extdata/example.bim
9e49838c4ef9572475057ec487f2475e *inst/extdata/example.fam
347dfee4390c81d62c63cfc0436b24f5 *man/LD.wiki34.Rd
056eea2547e968f9f548be93dbef254c *man/LDpred2.Rd
3141524d087ada0801cdd2dfdfe10a8a *man/SCT.Rd
d98753bb65cd691da89aa1a9fd7a5856 *man/bed-class.Rd
23e890ae0c04b8afa5fadd2fc13eeaec *man/bed-methods.Rd
03aa9c3a6f502c5f787c15c73077a6a0 *man/bed_MAF.Rd
70373bd25f5125f9d037d79c0e68ef1f *man/bed_counts.Rd
fe2b7da594e04e5412309f3c9e46354a *man/bed_cprodVec.Rd
31b118674e12032265ed94359c2a36c0 *man/bed_prodVec.Rd
1d708b0249091dc00253ce3736d502b1 *man/bed_projectPCA.Rd
e0aafeb1a3c1f75cffbbfd4a712bacf7 *man/bed_projectSelfPCA.Rd
4bd14db90f336cbbc27b01bed8fd82e4 *man/bed_randomSVD.Rd
11240d33602a75754ad460c20c528b53 *man/bed_scaleBinom.Rd
a7f0946883aeb7f3b6e426915ba8014c *man/bed_tcrossprodSelf.Rd
f5275da2e09c71f8abee31063e053969 *man/bigSNP-class.Rd
68aa18cef0f7c70f6357cda0773510d5 *man/bigsnpr-package.Rd
a3ee6010788dfe1d1fc41d92d54ca54b *man/coef_to_liab.Rd
1ebb1ef372b3aaeab2a308973ff9046d *man/download_1000G.Rd
9ccab8c97fab34c6d7c3bcf46fb5975b *man/download_beagle.Rd
65ed0fb75583fe39a14555b953687b69 *man/download_plink.Rd
b0b43069267e9021b0cdf4bc59ca71fa *man/reexports.Rd
7afe31e869036dab7532e01f600cbab5 *man/same_ref.Rd
822de01037f6004cd2c71973c93ab3ec *man/seq_log.Rd
303086f833b30f35d3b2e08dfb1fae72 *man/snp_MAF.Rd
ec06ea699470bab42d72fada7e42583f *man/snp_MAX3.Rd
5e9c2a75fd2f8113136b60c56c4622a1 *man/snp_PRS.Rd
97e8b99ddee97e09fb5363c1dded85ec *man/snp_ancestry_summary.Rd
d75d2b1b2503d088476bd49eea128e92 *man/snp_asGeneticPos.Rd
4b662773aeeab15acfbb00767f87ac51 *man/snp_attach.Rd
57f717285724c074a88f22a5f6c0ece4 *man/snp_attachExtdata.Rd
711404a5c95777f2ab7267caa6a49acb *man/snp_autoSVD.Rd
b648213f2509213669681465af31169e *man/snp_beagleImpute.Rd
e90d9be07417d3810b51a540751de6b9 *man/snp_clumping.Rd
80dbe0a6e1032848359a30d2e7f46096 *man/snp_codes.Rd
cbf62651772a3fa9cb7aa534486d82d7 *man/snp_cor.Rd
72c783078eb0f88278725af8f8bd5935 *man/snp_fake.Rd
92a349e44dc8f2268e400b746b6ae06c *man/snp_fastImpute.Rd
2694be741cf96b324fbcb2dc57b1d321 *man/snp_fastImputeSimple.Rd
ab6912bd6c643c2728031246de3366c3 *man/snp_fst.Rd
328b95abe72183dace39f9bc421c3c3f *man/snp_gc.Rd
f80bfeb85bfcca38d9da5a3b74da8f36 *man/snp_getSampleInfos.Rd
6a21d751cc9c3a6d2fa9b5c36862ef10 *man/snp_lassosum2.Rd
37ac4bd84bb2c56a7e784d3dde0bb2c7 *man/snp_ld_scores.Rd
962d9d0592696374dcab86415680504a *man/snp_ldsc.Rd
fadf4e410e9f02990e194b1caa44eba0 *man/snp_ldsplit.Rd
da20123f13e8a146f31cabcab74613c1 *man/snp_manhattan.Rd
7417dc62d7f40aeea710289aa0648346 *man/snp_match.Rd
0534faa344743383371f95d41f01ce43 *man/snp_modifyBuild.Rd
36c83cc3ea7c31f4342ee736341ec2a1 *man/snp_pcadapt.Rd
22cf180ceeb3d07e06d3dfb7cc60745e *man/snp_plinkIBDQC.Rd
e955d43a543cb48bb6a23fb438e91235 *man/snp_plinkKINGQC.Rd
8ebf376e31077a95656d319ba076fa5a *man/snp_plinkQC.Rd
021dc3831420df53445871ec7c447495 *man/snp_plinkRmSamples.Rd
bcb7e3720833f22dcea6ef17957a96e1 *man/snp_prodBGEN.Rd
2ac5a1be9b854c586a85aeac8b31192e *man/snp_qq.Rd
3096d89a3808946cba28475b52947a1e *man/snp_readBGEN.Rd
ee5fd0aa18792db32c8bb4991233d843 *man/snp_readBGI.Rd
e57655326b30893e3456084f6197213b *man/snp_readBed.Rd
008fb4af2f2fb7b2a6f51b2e75bb1444 *man/snp_save.Rd
79be8baaa38f3344587d755abe46294d *man/snp_scaleBinom.Rd
70b7cfc2b58cb38ac6530b0e82a6bb66 *man/snp_simuPheno.Rd
9bed8057fbc5fe3496bb542885cac9cc *man/snp_split.Rd
f2a73a211face2ccb21c472bf4b54c3c *man/snp_subset.Rd
0d047158c67edd5380e07a9ae07ee0b6 *man/snp_thr_correct.Rd
bc364de4a10d9a35676037b0a75017bd *man/snp_writeBed.Rd
f12404d2d17828ce3c2de4b4772ca034 *man/sub-bed-ANY-ANY-ANY-method.Rd
af98c83a566a347842e2292b9a1870dd *man/sub_bed.Rd
55938bcab1cc8cb4d088eab8513db73e *src/Makevars
42e0b59afd1dd2b1fd3a5a6f8c2577d1 *src/RcppExports.cpp
3891cfdd8ec085080cdd5922253effc7 *src/bed-acc-xptr.cpp
69f623f07b4fb48cde38d54932caa715 *src/bed-acc.h
b37eae315d6b1a886d489e516edb49c1 *src/bed-fun.cpp
e66a60a811ad577699b6738e5398c62b *src/bed-mat-acc.cpp
7c2c349b7e7b104af83eeaff72c60d01 *src/bed-prod-vec.cpp
311274d450d83277ee6e652555976c73 *src/clumping-bed.cpp
d1e1ca92804cd2b5491b51b8bd67900e *src/clumping-cached.cpp
1c9a3eca4fc57187304a7a5b53f70e02 *src/clumping-utils.h
de1db6d05759fe5cff5d62fde0f89331 *src/clumping.cpp
ea98c0fbac1e061daa41465247d8a7a5 *src/colstats.cpp
251b52974da85b4bccadfacb036f3a08 *src/copy-subset.cpp
34aa98ce16b13d0867f1a0e58906aa64 *src/corr.cpp
e371f50b88f8071fca2e20ee1dbad8d8 *src/corr_with_cov.cpp
ae691592cc6a45142a13e1e12b19666e *src/fstream.h
b419c3139c356222b1447fea1c437719 *src/impute-simple.cpp
a4fac316a353eb2ef5da12db763799e0 *src/lassosum2.cpp
57bf37271d986ee3b1c42a6ac7a06777 *src/ld-scores-sfbm.cpp
ee41c2af99ca61e290a6645d98ce4d9d *src/ld-scores.cpp
ca784600a0098756eb0284a42a4e1a7d *src/ldpred2-auto.cpp
c693d589858c099bff9acd0cf5414a60 *src/ldpred2-sampling.cpp
383e07fcf950aad535f8940d1a2f2e29 *src/ldpred2.cpp
f8c206807a53120b939ecf0688b52c5d *src/multLinReg.cpp
05c76e5aa09f9f15cef0bd6d5a239cc3 *src/optim-MLE-alpha.h
63765f350b5f8171256db3c48f498761 *src/prod-bgen.cpp
a868edd9043a008a80cf237b12d3f1ce *src/read-bgen.cpp
5eac9383dce00b4a368ca78c57b8fcc7 *src/read-plink.cpp
89af7b82f454ab8dfb9a21c1581002bb *src/sp-colsumssq-sym.cpp
1c68eff6a4369fd13c3df3cd3086b3b6 *src/split-LD.cpp
12c039da8d64e67c055352fc720e7e84 *src/write-plink.cpp
d1b004762b6904147d0fd0fd890a68d1 *tests/spelling.R
5340e9ba343136031a7c22fbe5fbc6ec *tests/testthat.R
e2664a107abe0e795168182b9878323f *tests/testthat/helper-init.R
35e1998f4147d496ae3c17619d7674fd *tests/testthat/test-1-attach.R
6368dda776a91d28bc19062419023e06 *tests/testthat/test-1-fake.R
bb6193e838efe128b0674bfde495db98 *tests/testthat/test-1-get-save-infos.R
8107881e0ace7c47589959711cc21a62 *tests/testthat/test-1-prodBGEN.R
bf38b1614439ba0142098eebed537a8f *tests/testthat/test-1-readBGEN.R
ee5224f9d9a6a2523993de034cd30c30 *tests/testthat/test-1-readBed.R
9173345de61082216f6794feaf0da8b3 *tests/testthat/test-1-subset.R
2295775c4f9c126fda16758f2e3f446a *tests/testthat/test-1-writeBed.R
1677249d3fe6e709d7bb24407ddddafc *tests/testthat/test-2-autoSVD.R
aaf2672df56e3bee4f1c66fed02dc30f *tests/testthat/test-2-bed-clumping-SVD.R
7c6324c599aaf0f13f7f803db6d48413 *tests/testthat/test-2-corr.R
8da61e82b5a59f7cc26cb696c099562f *tests/testthat/test-2-ld-scores.R
d2b09e9225fe37f04c2b0d3a7910ce89 *tests/testthat/test-2-pca-project.R
47727cfe00d27f260880cded8462a8b7 *tests/testthat/test-3-fastImpute.R
1aa8a4363631ec7f60c5a3f4c143fda9 *tests/testthat/test-3-plink-QC.R
5073a0a122bb00199f86eb4375e5b590 *tests/testthat/test-4-MAX3.R
6f27821c339a822db9d71d6fc3865693 *tests/testthat/test-4-manhattan.R
8ec0f4014d504a2f01e0786c3dcf7b03 *tests/testthat/test-4-pcadapt.R
995b6aad412cbbe04d722446d554692e *tests/testthat/test-4-split-LD.R
f8d8624914d9b78da243069471d75f5a *tests/testthat/test-5-bed-prod-vec.R
44fdf97108071103b4fa801ffffd7b8d *tests/testthat/test-5-match.R
d556ecc88e2dd174f9a59c670e839908 *tests/testthat/test-5-parallel.R
69aed85aeb6fd8cd194fd1e03e45d35e *tests/testthat/test-6-PRS.R
9ed5037524237c46b12b3dc9e6101d9c *tests/testthat/test-6-SCT.R
437b21c15eb59021932e9cdac87f14f2 *tests/testthat/test-7-OpenMP.R
587c5df5a9d3766a37fafaa529f84923 *tests/testthat/test-8-LDpred2.R
1dd398f9afab37fccab28a02847d52a4 *tests/testthat/test-8-simu-pheno.R
7af1ba0d60d39e2732f20923412f6222 *tests/testthat/test-9-Fst.R
e564c5018bbe28b64d1ff42c56611f8f *tests/testthat/test-9-LDSC.R
634b474dcc4245b7c7174ae83347f5bc *tests/testthat/test-9-lassosum2.R
6564c95de7bc7fec80f71407c6764f93 *tests/testthat/testdata/before_readonly.bk
4a115902f68d3c8ef0f61cc841562c15 *tests/testthat/testdata/before_readonly.rds
396e1a460b04cb8d3eae307a8a9b9900 *tests/testthat/testdata/bgen_dosages.rds
b30b0319407f06176015b5430343fba6 *tests/testthat/testdata/bgen_example.rds
733bec288d7a1cd8dba4e2f1d8bfdb86 *tests/testthat/testdata/bgen_variants.rds
d8df8093a9d9955bfdc335589683bdfc *tests/testthat/testdata/bgen_varinfo.rds
337eac82fed3ecdf779883f2c1b11ec7 *tests/testthat/testdata/bgi_example.rds
3a9fb2906a074338f6b40d185dd4cb43 *tests/testthat/testdata/clumping.rds
229ce928a2dcd8df1efa68dd5c9c4b60 *tests/testthat/testdata/example.ld
2da201de303fc52ed72a9540c9baf68a *tests/testthat/testdata/pval.rds
9e029cb629e96ec9f36dd127b45eb110 *tests/testthat/testdata/scores-PRS.rds
1871c171be7b7d330f34ea7c94dfde50 *tests/testthat/testdata/spMat.rds
b3bbc72b8f219a8962a41ef1d2975cbb *tests/testthat/testdata/split_before.rds
