ee085156d23327c5fe60950ad143e518 *DESCRIPTION
5612be7ec4d486329f7a304d8eb14692 *NAMESPACE
6e9c91cb507d6f4971899434cc269e62 *NEWS.md
c599454cb7edf992d2ab3c99d0360d86 *R/CCcolors-data.R
fb1f783101a84e5c2068d273808fe06e *R/RcppExports.R
fc665fa6ecfe6bf80c6b3120ddaadd22 *R/add_threshold.R
e68d21608bb47b80d558e9d3e7053810 *R/align_scan1_map.R
56a3d59e1b076bbbdbf4aff0cef1187b *R/arg_util.R
3b575ad3b4e4bd18d13c474429adffd7 *R/assign_allele_codes.R
184682a405425cc4e4879513a0fdf95c *R/batch_cols.R
6a6fc7db8f9d875a0112be96dfec8f21 *R/batch_vec.R
83b72de28808dba783fc9cff74351f88 *R/bayes_int.R
6d92d6ae7cbba643124d0063d388dbea *R/calc_entropy.R
e12dc4f941b4a90a11443c5e5fc6ff3b *R/calc_errorlod.R
b06a8bc5c9fb53c30550bd4d6ffbd5af *R/calc_geno_freq.R
5e7fbaad00ff539a2af46f78af922055 *R/calc_genoprob.R
a2332f116cd6a1da8fb9d1dfea3829fe *R/calc_genoprob2.R
bab60f2f8835bbc2447aa913e9688fe7 *R/calc_grid.R
883deade532f452aced82cc10aa52c32 *R/calc_het.R
f11853d8d00031f97357b680914532ab *R/calc_kinship.R
c77d0847ddeec02336b0649060a29f12 *R/calc_raw_summaries.R
38b289f3edc651dd308a03a40377f5a0 *R/calc_sdp.R
648754d934cfc49bdabe424711ef1bd0 *R/cbind_calc_genoprob.R
b2af37e0bdbc0dda55b06edaa7bd1be8 *R/cbind_expand.R
98555e234a77cf1755b6e73c3f016cd2 *R/cbind_scan1.R
0c504d0bad6022f9b0de422f2fdf7155 *R/cbind_sim_geno.R
906d9fa60218cb0c19de53579c971c4d *R/cbind_viterbi.R
5804421847520d930604b3a5765e4b91 *R/check_cross2.R
7d0bed9c7399d9a90fc12b34b64aab59 *R/chisq_colpairs.R
7a1b44e2b154dfa7b87e75c2d278fa25 *R/chr_lengths.R
c25dd04ccb82ccc00f0452f6515edf9f *R/clean.R
679e513143a0803812eb00b0a60e9c66 *R/clean_genoprob.R
c6c3c31452afac51ea02e40e2b6e062d *R/clean_scan1.R
c1615a0b2f0fc28e653cae7bb8c9ae81 *R/cluster_util.R
014eb3c242fe9eda16a753815d5cd410 *R/compare_geno.R
f873e347f054e80b12ddee8d25dd4f74 *R/compare_genoprob.R
e48a6e748929fc4bd3106c2b478d61d2 *R/compare_maps.R
3039a74d5b9a004f2dd7df893a6f8486 *R/convert2cross2.R
9d2c6ff616fc1e75cf14e4065bf246b5 *R/count_xo.R
fd1ec752a6a4d6beba6ad4b7a9780ed0 *R/covariates.R
eb9c88fbbde616583d598411d694a917 *R/create_gene_query_func.R
f4ce9d8d9f3cf3b00a24762296e89dd4 *R/create_marker_index.R
ec0ff4e93d7fd43bb889b8967cbb33fc *R/create_snpinfo.R
11b8969e51f0a27d978553be32ead1a9 *R/create_variant_query_func.R
c482189aa324a65c243ec905f397bcb0 *R/decomp_kinship.R
c5dcd686befd353fe9bc768e8bf3b13e *R/dim_calc_genoprob.R
1fdec477e6f7ca9835791e2a76964e6b *R/drop_markers.R
83439853be8cc154c1ed3e1db193003e *R/est_herit.R
a474821ba4d4f7f9ffafdb28cb609f27 *R/est_map.R
b442ad000272dbd5704add7278aaa593 *R/find_common_ids.R
f27a3ea044ba647acc1d751b69d1064c *R/find_ibd_segments.R
78c1a71f5a20f8157fe480995ba18fcf *R/find_index_snp.R
81659a66956281b093fd593270bf71b2 *R/find_map_gaps.R
f83efe03a526a6f14573a1fc814f0357 *R/find_marker.R
4c1b5ce2a85a23d762bb44be12e48c7c *R/find_markerpos.R
5154c9e13f98d781cd9e52214abd7dd6 *R/find_peaks.R
c2e8f7e67d6bb34856f843a6b88c26aa *R/find_peaks_and_bayesint.R
26993ba62489e474bed98a93bfeca2c3 *R/find_peaks_and_lodint.R
e64f0360844bc99b7fb975ffbfc99ce6 *R/fit1.R
3f5b7a9a903e6e3cd8a94a9a94702623 *R/fit1_pg.R
ea4a950ee935bf8e3de2123acf095c22 *R/genoprob_col2drop.R
6bd291df776b89a950f798f9a58213c1 *R/genoprob_to_alleleprob.R
1aa8252a736425709a13c5aca18a965e *R/genoprob_to_snpprob.R
cf58246355fa1179af5689de594030ec *R/get_common_ids.R
52b104e46e9dafd7517329def9b6f75c *R/get_x_covar.R
21306043c2408d365d553684b99e5c28 *R/guess_phase.R
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831df39798ffebbd0a44e7bd6901b0fd *R/interp_genoprob.R
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6c6d1be16de723439841f3665eb2875b *R/locate_xo.R
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430c689df1f642ee69ceb42a6f64cd7d *R/max_scan1.R
ce4584e98c062ac75e2a95d395d775c0 *R/maxmarg.R
93e29a922367e31ddbaced17c5a82b16 *R/myround.R
f471181a1486b4cbde50dbdeef9435c9 *R/n_missing.R
3cf96dc2becaa68868920a7300f7d4c0 *R/plot_coef.R
920a754fa9178197b236c7d14cfeeb86 *R/plot_coef_and_lod.R
c7574ccad2bfac5a52efae51c81f8489 *R/plot_genes.R
5de3c31aa4f488cd17e480e7b8026fb0 *R/plot_genoprob.R
1d878dd48ffe06098031c75593662cba *R/plot_genoprobcomp.R
60799adeb9ae6c6811c0a19df541a8e5 *R/plot_lodpeaks.R
10523eb5c710e1ffa10bc56d1932f1a9 *R/plot_onegeno.R
21c1bdfc4e483255995e82c74a1e69fc *R/plot_peaks.R
53de3aca2edc344865ae455a49680e86 *R/plot_pxg.R
a580f7325ae8eeb8b5016719c9df1629 *R/plot_scan1.R
141a0754170465fc02b23501ce251885 *R/plot_snpasso.R
5a2257b53b605f5e418c6475a3e6ef64 *R/plot_snpasso_and_genes.R
d7840c8686df1f264d0e9e357a96bd36 *R/predict_snpgeno.R
9ae935f8c012f35e7d993f1064b34b6e *R/probs_to_grid.R
1159c2771b85e8dbc66e9daa287b2a6f *R/pull_genoprobint.R
c200051683c8a29c7cf2fdc074b2bc49 *R/pull_genoprobpos.R
101d175aecc507218cf49cb76f2e55d6 *R/qtl2-internal.R
858041c2bf49b5bf3d92e45e33287d66 *R/qtl2-package.R
4ea40d19c75fc3de6a5a3136ce7e79bb *R/qtl2version.R
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1e7efa7949b76053409d8e271b33c39c *R/rbind_viterbi.R
be2d32154331c32b72ad57bc4cfdcd30 *R/rcbind_scan1perm.R
598ee721d9541087ee9fe62f2335fc43 *R/read_cross2.R
b9f2994ca5a75529ea9fa58803df6f80 *R/read_csv.R
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c55a2d82b082c70acd1088a6493fb022 *R/read_pheno.R
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cb4878f64d1de8bef67c761027431216 *R/scale_kinship.R
e06951894f065138ccd3e57f89baca1c *R/scan1.R
bf129552b20527d271786c2d5d47ef97 *R/scan1_binary.R
8088f715760318c5127328e1e04406c2 *R/scan1_pg.R
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0fe00528353a648598464344037d1fe2 *R/scan1blup_pg.R
d17847bbecaad223035603c977102ddc *R/scan1coef.R
345b7a7a708cd835291fbf2e5d52204d *R/scan1coef_pg.R
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4bca03b0eaac0350c05a64d8dbcd93f9 *R/scan1perm.R
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33f74ede4d29d6c44a619fba81f4ca8f *R/scan1snps.R
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99101617a12aca08629ec067c0bcb07b *R/subset_calc_genoprob.R
eae9c4fc9e5009bd41c638087fade04f *R/subset_chr.R
da22e168ea9b1be840588a284681e2ac *R/subset_cross2.R
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aeae13d7df7a48a7d32633c00d84ef6f *R/subset_viterbi.R
9c45b5eadf9e55c2b91a6151fa9542f3 *R/summary_cross2.R
7907cd4f2b8888643e1d646b42f35701 *R/summary_scan1perm.R
8363246eb16254e0693f78073e51f4d6 *R/test_util.R
c3e2b077c68d8b04bcc631015aed9e89 *R/top_snps.R
cd6cb7f210817e3645bf314a11e3bce7 *R/viridis.R
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9607e4d061832edae0570e22f36ff9f6 *R/viterbi2.R
588cfe8ada2d39544f5486f17a09d775 *R/weights_util.R
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5f342e69d72e1f81eb234a83202f21c7 *R/xpos_scan1.R
791a49f22998730dcd05951a1225ecbc *R/zip_datafiles.R
4d70f687656b04bebd41fc39faccfec7 *README.md
b2fdb9699a79354d8b9bbb360e1086f7 *data/CCcolors.RData
d0542c8fa23394cf58b68c55e848fcf4 *data/CCorigcolors.RData
5bc51ff639399c4d10b1bcbda85c0313 *inst/CITATION
0a7a0ae896edb74d26fb4ef0f3006f66 *inst/extdata/ReadMe.md
f7de8f12e5490dbfe7b860ae6c0897b6 *inst/extdata/cc_variants_small.sqlite
79328389d282d13b8146170bcf163c72 *inst/extdata/grav2.zip
7773871af9c54163e52f8bb00ff5c590 *inst/extdata/iron.zip
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4b1fb372f6e3c0483e2be4ad67e0cf40 *inst/scripts/ReadMe.md
2ceae5a8d36d5072b3426faf698f0c2f *inst/scripts/create_ccvariants.R
e32b92aee32a10b0490bbabb5f56e2a7 *inst/scripts/create_ccvariants_small.R
dff4b48a7ef009d40e5d8df18c76a30f *inst/scripts/create_mousegenes.R
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1fdbcc69cb3ffb04f03bd0d7ef3e9924 *inst/scripts/create_mousegenes_small.R
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8fcf30d0557c647456caf95d4be40f67 *man/add_threshold.Rd
5badb3da734890bed3160129cad5d1ce *man/basic_summaries.Rd
eb8dc8a13814092032bebc7d10fac166 *man/batch_cols.Rd
0195df40d01e9e61c55f7842a9f30eb5 *man/batch_vec.Rd
bd7751a7f8652725d4004a049d05bdcd *man/bayes_int.Rd
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