242232c4e6ce835a98252f05c611646c *DESCRIPTION
8837236d8550a89081f361a1fdadc3fb *NAMESPACE
ae1eee25e55ec4ca6c5a18e484a88805 *NEWS.md
874560dff337c9a6b1f0be9c3adc5424 *R/check_chrom_lengths.R
f03ed398613c19f17763810b97de5534 *R/check_gsp_for_validity_and_saturation.R
ff7f6ddb6732817970cc73c2952ea708 *R/check_pedigree_for_inbreeding.R
19e945f43ea900512e9a807ea14f9531 *R/check_rec_rates_formatting.R
b176fef33143ad9e84d63e92257f3586 *R/check_reppop.R
d645304aa7f1ec3a3db3aa8db46fb154 *R/computeQs_from_segments.R
44a9f73b68037790f42575a98676abf0 *R/create_GSP.R
67c3d1ca7b2b35945b883c6b9f283ce9 *R/data.R
537568559074d3817d284276dc10a995 *R/drop-segs-down-gsp.R
e0337f8eceba23b9f5059a269d44a2a5 *R/gscramble2newhybrids.R
7f6d44d9385a6e1ec96f8492d2206073 *R/gscramble2plink.R
45bf71c472b7324520ab2e8cdfac5c50 *R/gsp2dot.R
6f551559a2623e84969d1fe3dd92a26e *R/import.R
1e4bd927eb02bbc052dfa9a329ef3aab *R/make_subscript_matrix.R
c6bcbeb9149230073993074f6bef8a92 *R/mat_scramble.R
86e12f69790532992ee7fa0ff93d748a *R/perm_gs_by_pops.R
4d5857c6352510a6a3129225ff6b6d52 *R/plink2gscramble.R
15022afcf3605a84761aceaee5eb3b44 *R/plink_map2rec_rates.R
e46e76a4fef41bbead0df4ccfa452dfe *R/plot_simulated_chromosome_segments.R
c9e77d9306699e78f0a485a2407767de *R/prep_gsp_for_hap_dropping.R
f2a1ba24b24ec5583a4bf925dee9134e *R/rearrange_genos.R
edf66bb48f94b535b5bb3265876cc733 *R/recomb_point.R
f2b8f37d8fb11dae2d24c9ab76f9afad *R/renumber_GSP.R
daeb9d3328bbb9bc1ff3896e7a879a5b *R/seg2tib.R
8dd60aea0c2dd7a82b913343ce0727e1 *R/seg_haps_through_gsp.R
c7d751489f2528cbc2d88f724be79b4d *R/segments2markers.R
2d1ee4aeca17eb338f5bda612826bf8b *R/segregate.R
7dc19eec5b6ae274b49b61e0b9516699 *R/sim_level_founder_haplos.R
05f3214d59a91c617d12d9325742d0fc *R/tidy_up_sampled_haplos.R
2c68e7f4defdea45d0ab6afa4ac8f7ae *R/xover.R
7914f531085ed0d1b2de1b3f3fb0ddc0 *README.md
6a7251e2ab4483658a97936d1e4135d5 *build/vignette.rds
5ec63e0b1a1fe93e6f5e5c9fb8b7f708 *data/GSP.rda
58c867b648a32f4bd87f5d129adec7df *data/GSP_opts.rda
2fe3e4ddbaaf617e60a4fdecca83b1eb *data/Geno.rda
93b480ccd30fcad64673bb1878712d8b *data/I_meta.rda
3f984d62d046caa326e4449ae066ae5d *data/M_meta.rda
f98e75f2299576dfcc40385e0e3b562f *data/RecRates.rda
370d25ed3ecdbcbd0923d87397382ee2 *data/RepPop1.rda
09d29909bb4e82e80222e3d2a8f18671 *data/RepPop4.rda
05d34bb66d7298943f267c46cad448d6 *data/example_chrom_lengths.rda
e736d331993aab86814c321a430a93e0 *data/example_segements.rda
fc942d7a6b291ffa6955e437be330edb *data/gsp3.rda
16aefe845d5bf3ccd4765b530b42afbf *data/gsp4.rda
64ceebc7c799dca364f1becdf962fbb8 *inst/doc/about-createGSP.R
0d30360731c6f779e95ff0f538583a1d *inst/doc/about-createGSP.Rmd
7899fc53e5b46b70c63e71260a5c4ad6 *inst/doc/about-createGSP.html
bcd6f735ed44b7747406f34b38ca0d15 *inst/doc/gscramble-tutorial.R
ac7f21ab391c348b447d0ef60305af5d *inst/doc/gscramble-tutorial.Rmd
101a3061ae0a08bcb7bb4a5d82328cc8 *inst/doc/gscramble-tutorial.html
122de78f8426b70ba400861b43ed1cc5 *inst/doc/permutation-options.R
e7467c7a9dfc2e83b2141b6801cc4925 *inst/doc/permutation-options.Rmd
daf8aee989287f9f28b01376fade5f83 *inst/doc/permutation-options.html
788c8ffab94288d4742d2a356a637a4f *inst/extdata/13-member-ped-with-errors.csv
449e2d297d551b84ffbf2fb741d3c091 *inst/extdata/13-member-ped.csv
d3dddcbe1d28dabef1a80d00e6605875 *inst/extdata/Torterau_et_al_2012_sus_scrofa_map.txt.gz
b09d9aaa82ed5f932f07e3d835b10e39 *inst/extdata/another-ped.csv
a45ed328afbb5cf80fa412792b4bbc4b *inst/extdata/eight_BX2s.csv
c3130adf2ec607bd3a07f317a31e0bb6 *inst/extdata/example-plink-with-morgans.map.gz
5bada0b0634477ab591d73ab9bdce4af *inst/extdata/example-plink.map.gz
d641903ef45970d307a5ed531758fe31 *inst/extdata/example-plink.ped.gz
f35bf80da17cfe930fd9a1ec62774f76 *inst/extdata/four_BX1s.csv
0980bb5e7bac5c22d96251db97ee0928 *inst/extdata/gsp3.csv
6e8c8d74efcecc87c01e43a4331f78e8 *inst/extdata/gsp4.csv
056f7ca2719d43cca0f994985fd07381 *inst/extdata/two_F1s.csv
61f458fb8784281ad824b33cc6ea98bf *man/GSP.Rd
b18ead72349dfe3a3e22d28bef1ade2d *man/GSP_opts.Rd
1cca857c10ff894844e11d7eb2a4d318 *man/Geno.Rd
03bba7012fb408061c5a7554bcb6e7b2 *man/I_meta.Rd
652c4f8cd1591b91a0542e1ea98dd838 *man/M_meta.Rd
9bf4d7faccd64d7d2188b52337de3158 *man/RecRates.Rd
8697f06004c04a70f30813e715686977 *man/RepPop1.Rd
6dcdf5a603740505cf0fa0f106b21755 *man/RepPop4.Rd
4027df2e57a1f1ca29d2f062727c48d9 *man/check_chrom_lengths.Rd
5801b77a9992b1369098afb6c66de98b *man/check_gsp_for_validity_and_saturation.Rd
3d2c85f1cffccbd254dfa511f0c48633 *man/check_pedigree_for_inbreeding.Rd
c9bb7ec52bd34b0f8a1f6a48320f7f82 *man/check_rec_rates_formatting.Rd
3a6ac256ad2fc1588f5ee6fe4f1efed6 *man/check_reppop.Rd
d2a943ce3c3890268bf59a4f0babcd84 *man/computeQs_from_segments.Rd
f7f411efce3d95234b96da4900cddd8c *man/create_GSP.Rd
62d3dcef3e73e19b0539b38125f50043 *man/drop_segs_down_gsp.Rd
39dbd6abab510756f0f3c8b27984d870 *man/example_chrom_lengths.Rd
27f0d01508dc9b895470bf067ce4f9da *man/example_segments.Rd
830ca2bb527b6ba5a17698fa260d128d *man/figures/1.svg
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d3cec0c923a67697f7ab2d9b6b072812 *man/figures/gsp4-700.png
041cd232231051b94723ed5bd14e2474 *man/gscramble2newhybrids.Rd
050ac21946e96df2e3f290d581108b7a *man/gscramble2plink.Rd
ff975d1f5f452950a5a0528e4d354be1 *man/gsp2dot.Rd
9162e17e9f3b6ef1b80eb16d18e92c7e *man/gsp3.Rd
a350affe9f68658675c7abe860c16d9c *man/gsp4.Rd
232116f05a9562c585e748751931b4ce *man/make_subscript_matrix.Rd
1be6483e0e96772f0e5a58f6737f3941 *man/mat_scramble.Rd
622d13590f80d822e1b73a36bacc6c63 *man/perm_gs_by_pops.Rd
09526690dd713a95c7d67a460c6295c5 *man/plink2gscramble.Rd
3e152c75249ef5a2f84ac0b34da21e76 *man/plink_map2rec_rates.Rd
089b7354b900a3c5531014fa80278729 *man/plot_simulated_chromomsome_segments.Rd
884edd5b53349627b5ad28a25c789cd5 *man/prep_gsp_for_hap_dropping.Rd
1c1fb8c8ffc46540fa5fe03e2ab94057 *man/rearrange_genos.Rd
562514b675a506fb24cc5e5fe51508ed *man/recomb_point.Rd
a341f504237ce775f812bd88c116c9fd *man/renumber_GSP.Rd
a1c6491d65eae450d97d4f60e65bc764 *man/seg2tib.Rd
35808cf9a6da3f2e49b443db2e840703 *man/seg_haps_through_gsp.Rd
f7dfb8bd474045600b06780ddcc9b7e1 *man/segments2markers.Rd
e9c3f7a1c56ea86f51a2f61ea24347aa *man/segregate.Rd
c9ab10e1be4a6efb700c0c642436584e *man/sim_level_founder_haplos.Rd
23bf0dd48b3f317760278951067a27ce *man/tidy_up_sampled_haplos.Rd
7a7722c3f09019dbab30f949404683f8 *man/xover.Rd
0d30360731c6f779e95ff0f538583a1d *vignettes/about-createGSP.Rmd
ac7f21ab391c348b447d0ef60305af5d *vignettes/gscramble-tutorial.Rmd
8dd6a772a0e539a1ad0dbc4382040948 *vignettes/images/13-member-ped.svg
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6260684c7f9339babb1294605adfda08 *vignettes/images/F1-500.png
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81c8684d078b78364ae2dc3774e70e80 *vignettes/images/four-BX1s-500.png
9332755b35b72954ec4b3e4c5b3dae33 *vignettes/images/gsp3-500.png
319e22438bf01aecd99de79c97479149 *vignettes/images/gsp3.png
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52ae78c5133f0d3c87169a48e0dcb1f7 *vignettes/images/ped13_complex.svg
e7467c7a9dfc2e83b2141b6801cc4925 *vignettes/permutation-options.Rmd
