b2d36ae43be8b7ca2f5cdf17c859ad9a *DESCRIPTION
1494273d4dd82a845b6b7b2659177170 *NAMESPACE
13f0571065a2d34424d9c2e18b8320fb *R/CO.R
485232865af36639714ef80f1765baa1 *R/GoldenGate2iCOM_design.R
04de729a9263eade01ca41baa9b09d03 *R/Heterogametic_Genotype_Warnings.R
c2752757774907229cb56200a816b76c *R/Ref_Alt_Table.R
9bc42a9f98b118d3b6f78f7cd9191ae6 *R/S4.R
48308f1f658da049ec01e1c641567bca *R/SequenomMarkers_v3.R
48cb574a6172ad0c4b858731f1b504fd *R/binary_coding.R
1ff773cd69b149763d064571f2f245fb *R/convert2qtl_table.R
7219ff0b37a3d64dbbe4698507a7949d *R/count_CO.R
4e85c33125e378c3c6006da2599e21ae *R/genotypes_data.R
5d17143b9c2979854f250831a656c30a *R/grep_df_subset.R
676bfaca7c716895a0ff6bb3fac6fc6b *R/illumina_Genotype_Table.R
c065ed1fb37b4d81873b9d3971e6d115 *R/initialize_genotypeR_data.R
9cc56da575882e13ee0d527c1195cb56 *R/make_marker_names.R
29d3e0e89e80272a592836042d33fdcf *R/markers.R
0dc14c5ae0ec00510788b44ae63894e3 *R/read_Master_SNPs_Data.R
3dca07b310bff5ac268a5237750ea498 *R/read_in_illumina_GoldenGate.R
bcae76d2422ef7b40b0e9dd943e093b4 *R/read_in_sequenom_data.R
f5027b292f2b9b1122b528511ae1989e *R/sort_sequenom_df.R
74a3a6afc32907dffc9c8731687e8bb4 *R/subsetChromosome.R
9605c4490365b4144df972fc3b33c81f *R/zero_one_two_coding.R
ec58123e0a6a959ea3c69f92d154dddd *README.md
a9d6f5abe2645bc0a83a9cb33bd21192 *build/vignette.rds
f1929e287399d2ce53cb4f55b4c28bb5 *data/genotypes_data.rda
cdcbb13838f5af68a75c3852cb65f1a6 *data/markers.rda
496acd7a0a84df85a3b488c47fe134e4 *inst/CITATION
e8bbf2c2757ae3a1497f03e14f4a2417 *inst/SequenomMarkers/FS14_test.vcf
0016fe026099b44c3bb3847a54a97785 *inst/SequenomMarkers/FS16_test.vcf
ca137f140e31934100b99a3f2d29b6d8 *inst/SequenomMarkers/Finding_SNPs_GoldenGate.pl
a64b60bdf2cf7cdb6d8e5ef47ee1066a *inst/SequenomMarkers/Finding_SNPs_Sequenom.pl
90c5b4bde0c998bb4925178d37b9144f *inst/SequenomMarkers/Finding_SNPs_new.pl
c68e4f02d43e16ef533ec7e9c72a7f83 *inst/SequenomMarkers/Grandmaster_SNPs.pl
c822089fa686ffd0e08eea8acd1c3f8d *inst/SequenomMarkers/Grandmaster_new.pl
150f9a20ae001891aaa1ad5c0d19b80b *inst/SequenomMarkers/Pipeline_Rapper.sh
09e6e8e5354f023521aeef39a52d8bda *inst/SequenomMarkers/README.md
f122315ae467816a09509833329086ec *inst/SequenomMarkers/R_Pipeline_Rapper.sh
b1edd72941dd43d691adc17a4ff709ab *inst/SequenomMarkers/SequenomMarkers_Rscript_example.R
6672ea9ae05de1fc290e6f6f80e06711 *inst/SequenomMarkers_v2/README.md
7a65a11275e9f25d1bff2f3588083673 *inst/SequenomMarkers_v2/pop_sample/Finding_SNPs_pop_sample.pl
95e80cc6293c57fecccfeec0363c7aff *inst/SequenomMarkers_v2/pop_sample/Grandmaster_SNPs_pop_sample.pl
74609f556a9ecfe43cb4d5ced5b2f0bc *inst/SequenomMarkers_v2/pop_sample/Pipeline_rapper_pop_sample.sh
ccb09309a26db9fe331f768f2e576e5e *inst/SequenomMarkers_v2/pop_sample/README.md
bbba69fc698cfb52781ba5bb935d4457 *inst/SequenomMarkers_v2/pop_sample/R_Pipeline_rapper_pop_sample.sh
f7ce0f45d6fd0b5eb43a7d34bb48e67b *inst/SequenomMarkers_v2/pop_sample/test_files/Sample1.vcf
e12640e5463bcde37211fe2457bfcbe8 *inst/SequenomMarkers_v2/pop_sample/test_files/Sample2.vcf
15296867bf239857a74117234d036397 *inst/SequenomMarkers_v2/two_sample/Finding_SNPs_two_sample.pl
8aef0cea3b926c1e9c3d4c136d04f2d8 *inst/SequenomMarkers_v2/two_sample/Grandmaster_SNPs_two_sample.pl
abe00dba26f10ff88e44a2380fe071b5 *inst/SequenomMarkers_v2/two_sample/Pipeline_rapper_two_sample.sh
b28cd9791b029131bcddc9ae9968e716 *inst/SequenomMarkers_v2/two_sample/README.md
b90d75eff7b560d17b10d6ea7d122df6 *inst/SequenomMarkers_v2/two_sample/R_Pipeline_rapper_two_sample.sh
a753e34bd1ae43a55c9d9776c576e28d *inst/SequenomMarkers_v2/two_sample/sort_by_chr.sh
f7ce0f45d6fd0b5eb43a7d34bb48e67b *inst/SequenomMarkers_v2/two_sample/test_files/Sample1.vcf
6b561da9b5b8800458c748bdf11e4c15 *inst/SequenomMarkers_v2/two_sample/test_files/Sample1_v_Sample2.out.diff.sites_in_files
e12640e5463bcde37211fe2457bfcbe8 *inst/SequenomMarkers_v2/two_sample/test_files/Sample2.vcf
8b33e613d48e4b427328c45d21e38c0a *inst/doc/genotypeR.R
334669a0ed11ea57e05161f185b308b7 *inst/doc/genotypeR.Rmd
5240cedd2dcc630474092b9c5acfb3c1 *inst/doc/genotypeR.html
6a3ad6858be0fce8020c05c19c5ae43d *inst/extdata/filtered_markers.txt
4368e7ab7202e9d5899fccc7d1f429c0 *inst/extdata/sequenom_test_data.csv
3788b0c5c75251eba63c467186442db4 *inst/get_SequenomMarkers_and_remove_git.sh
39c0c3a989aff9335dcb88a23544270e *man/CO.Rd
c7e763d90f58d35f7b6a698f892d5a9a *man/GoldenGate2iCOM_design.Rd
30eed9074b6809b4bc6470ece3dc7b3b *man/Heterogametic_Genotype_Warnings.Rd
aee83bb36b9df66bbdd4d45c9eddb4d7 *man/Ref_Alt_Table.Rd
3549f12a6c44044f07fe2b10949ee5ea *man/SequenomMarkers.Rd
4d3b5758ad54e74c610e85af73b5e7d4 *man/binary_coding.Rd
5579bcf57d03f157c01a4f17e9196219 *man/convert2qtl_table.Rd
68feaa3adb61b163b779407ecb350515 *man/count_CO.Rd
d65bc59cce1b5114664bfc7fa2b839f5 *man/genotypeR-class.Rd
fdd9a3568cfbf8c0261aa51c66faa5e5 *man/genotypes_data.Rd
90ded11f4b7ac2535b304faa1665c028 *man/grep_df_subset.Rd
41f8fa98186dd3efe09d17b9f2d70a83 *man/illumina_Genotype_Table.Rd
3d86fbaa4167b68456e2184f19d857d8 *man/initialize_genotypeR_data.Rd
6cb9676f36a45c53ca36ad413bb70614 *man/make_marker_names.Rd
da2b61d520e8128b17683d2fe2e5e675 *man/markers.Rd
4f48ad41614a3c0343bc374713eddf66 *man/read_in_Master_SNPs_data.Rd
4b2f8a49686c382d64a1027c8b7c370a *man/read_in_illumina_GoldenGate.Rd
731a0d54c424914b4f7e66d486e45099 *man/read_in_sequenom_data.Rd
0ccd3e2fde4558260314b8bfc6c0d68c *man/sort_sequenom_df.Rd
347e6201e2b2ecc56320ebeb5b55477e *man/subsetChromosome.Rd
65a9e5d8c48322c098d6962222128064 *man/zero_one_two_coding.Rd
c5afea139205cbd19282fc807a44c0a8 *tests/testthat.R
35b964c0fbb8840cb6960ffc821ec831 *tests/testthat/test-1_binary_multi_coding.R
ac1b5b1e62551acd39bff3877c417c90 *tests/testthat/test-2_subsetChromosome.R
f5b2070e10c1be8e1babee26951638c4 *tests/testthat/test-3_CO.R
ec04a845cda0639494e971fb8a1a6f42 *tests/testthat/test-4_count_CO.R
62e868d590b2aaf502f8e6add7b39839 *tests/testthat/test-5_Heterogametic_Genotype_Warnings.R
af805b078a71613bf12963b064e2a97c *tests/testthat/test-6_initialize_genotypeR_data.R
1b7d0d4d0a14ba87a1cf22e70c859d05 *tests/testthat/test-7_sort_sequenom_df.R
f6775c67051a1a8466f0a098ff8de049 *tests/testthat/test_data_generator.R
334669a0ed11ea57e05161f185b308b7 *vignettes/genotypeR.Rmd
483f16c54f33efd310a0bef4204f3abc *vignettes/genotypeR[exported].pdf
