016e24cac2160519fda477383d2a7c75 *DESCRIPTION
b55ff45f286c9afd343497dbac8db8c4 *NAMESPACE
aa32d95200466690b8c2b40eb155a1ba *R/aiding_functions.R
61a52e6985517aa569e672679d7e43bf *R/exported_functions.R
cf8f35e4d8f3eaf98272a2d1c1233538 *R/p4_functions.R
5756f992e2fe114e40522790f31e4806 *R/r2_functions.R
3859f1c996cff5d6b6d509be74c5900b *R/r3_functions.R
905cf32a6d446281f8b10ac4a16461de *R/r4_functions.R
13b75f33cd692e58e64e02d36bf588ca *R/r6_functions.R
71f27b563c67dce6b0279c5a2064fa19 *R/roxygen_datasets.R
121f4576a0451346129c7524c72414e0 *R/sysdata.rda
21e72520949107a76dad7b6b663fba74 *build/vignette.rds
2e017d9d11d73c2d111f37daf2f8edad *data/ALL_dosages.rda
875baa62048b4ccbe6d5d99ea36ce30c *data/LGHomDf_P1_1.rda
e24dd9040a6224689e156171e73221af *data/LGHomDf_P2_1.rda
bc2b898070ea9b3c2dfd022d1e1b4db0 *data/LGHomDf_P2_2.rda
2b9e0a408213367d989c172b9efff921 *data/P1_DxN_Assigned.rda
15625a42c51e8dd57cf41ed3d6b3e40c *data/P1_SxS_Assigned.rda
9ba2890b9d4048e6142a8a4e6b828f0d *data/P1_homologues.rda
63e5f703ef2143d265387af7102f8a05 *data/P2_DxN_Assigned.rda
e5701c0e7b79fd551a9710f0fbdcb655 *data/P2_SxS_Assigned.rda
10fffb7f2ac42ad90178dcc3bf500414 *data/P2_SxS_Assigned_2.rda
4445dba6501e0370e5134e114aa040cf *data/P2_homologues.rda
6717bf65655337d2ff80b98cac6a66ce *data/P2_homologues_triploid.rda
6f2715a7ffc12ee9f6f0b2b8d0471d57 *data/SN_DN_P1.rda
d1f42f2f9f75af802a075c8375fc5856 *data/SN_DN_P2.rda
11703e978786cd987e228935a29cb9e5 *data/SN_SN_P1.rda
09636c9fc774f291140da6df70eedb2f *data/SN_SN_P2.rda
d7d9f95e5de8d4ae4d702d3627055199 *data/SN_SN_P2_triploid.rda
fc799ad499ba92bb0f6c5a0fcca635ae *data/SN_SS_P1.rda
037f7276f2714b53d80214db43a71d32 *data/SN_SS_P2.rda
9f24c27fa151cccf6ce2cafaf4663cf2 *data/TRI_dosages.rda
dc12cb239ca9d96ea0ca94d70b05ab81 *data/all_linkages_list_P1.rda
859e3d330cc2f7cad6a15ba35897ba3d *data/all_linkages_list_P1_split.rda
7496708b80cfb9deb86476715c353b66 *data/all_linkages_list_P1_subset.rda
03a5972b9f6777e3b6848d18f154a01d *data/datalist
b6f198a20e2edc9617b05ff38943a413 *data/integrated.maplist.rda
9220f4224f57b497226c8660127350ad *data/maplist_P1.rda
3b66998e8763362209a42f0a7e586d15 *data/maplist_P1_subset.rda
d19e640b5214d2fc872f96c599f677b7 *data/maplist_P2_subset.rda
bb260483c6e915f9eff01fc56861245a *data/marker_assignments_P1.rda
fb1530bb1ee8232dc9c905870a139ffe *data/marker_assignments_P2.rda
a33afb837acde9f419fd029d2721cd61 *data/phased.maplist.rda
e42532fd70f97436f54ec370c60c20c6 *data/screened_data.rda
43ac32cfa93eecfe4a70f98e3a11ff82 *data/screened_data2.rda
8df63499b0b88f760be1ef610799c053 *data/screened_data3.rda
b2f9679c28f0792f5455a84baa0c4149 *data/segregating_data.rda
32af27490a7b37686e48ef98b2183e74 *inst/doc/Vignette_polymapR.R
9e7ee53cf0d8dbecd5dc2724767e0e37 *inst/doc/Vignette_polymapR.Rmd
542cd5674dc283eeb84c3bd958c197d1 *inst/doc/Vignette_polymapR.html
4d5f4f9b98c18a2406c903f9fe0adb01 *man/ALL_dosages.Rd
37a29f084f1bcba21b886edb7c8b037f *man/LGHomDf_P1_1.Rd
36daf0be6f51f266a69faa9e419a3f99 *man/MDSMap_from_list.Rd
5837e97fef14551a3e0d55102c63b997 *man/P1_SxS_Assigned.Rd
c0be7e3e00cfe60a7ff87da080ac6379 *man/P1_homologues.Rd
4b7aedb90a5c11d7f9525043be8e965e *man/PCA_progeny.Rd
bea2f10481ba421e6a201f5919fa4645 *man/SNSN_LOD_deviations.Rd
fc33f1e9af3b292f86e1fc1f759ae5d9 *man/SN_SN_P1.Rd
ed730a7f4dc08bae7761a693e16fa13c *man/add_dup_markers.Rd
eac827267103477669ef2648828b14fe *man/all_linkages_list_P1.Rd
d3300843952ba9b22471deeb0044e2c1 *man/assign_SN_SN.Rd
44b53fefe8f4bcd62a6f8e9058621a6d *man/assign_linkage_group.Rd
71c594d9fd54108d2085792aa03d395e *man/bridgeHomologues.Rd
0ec5058e2dd05889ca000f13e7a58474 *man/calcSegtypeInfo.Rd
0758f79220a02ae5a7a78cbe0a8913fd *man/checkF1.Rd
51249400bf2136dfff3649e1c81b4ce1 *man/check_map.Rd
dd0ab56b21ba6bada86d1f2a270d4f14 *man/check_marker_assignment.Rd
04419950037028c46e45c13dfaa87309 *man/cluster_SN_markers.Rd
bfadede26a469ab3f8110b52e8e5ef2a *man/cluster_per_LG.Rd
98777abcf6a62be6c9de024836f23667 *man/consensus_LG_assignment.Rd
29e06787bec64b752653f1f82573fad1 *man/consensus_LG_names.Rd
0b6f876f90561f11532ea1529283c446 *man/convert_marker_dosages.Rd
3971d9398f267d1d18cf7e4257d82c78 *man/correctDosages.Rd
734ad6b76a26ad8897fbf0a4f5e03134 *man/createMap.Rd
2a3303cbe62908be0e323f32f6bba854 *man/createTetraOriginInput.Rd
8c02296079768ace0646be7d6c6d3618 *man/create_phased_maplist.Rd
dde9565dfc40abd6fc4ad6ccd03077a5 *man/define_LG_structure.Rd
e2af37a6615160d93f157aa075c8a8f9 *man/finish_linkage_analysis.Rd
52a60ba606f19c2c67b7a7ac96f27324 *man/get_markertype_combinations.Rd
9835775df6c7183753ae277d4e965309 *man/homologue_lg_assignment.Rd
b1ef02e2a162470440b48fd5301a8c5a *man/integrated.maplist.Rd
328e1d8bf8092b8082390851ad2dfcd4 *man/linkage.Rd
1107052bf0fdaba60c94102d34fb0aae *man/maplist_P1.Rd
5c3d44b676dcf4f0a0803f1d00891370 *man/marker_binning.Rd
9b340d0d7c1b28ffebec33550f3b6040 *man/marker_binning_list.Rd
415a922810888402916d321134685361 *man/marker_data_summary.Rd
8d7b2aca3e93a3afa01dd416328e5a6c *man/merge_homologues.Rd
02881cd3a54dbd74280509836bc46c64 *man/merge_marker_assignments.Rd
3be556aa0a983834b765b0cbc9da6021 *man/orient_and_merge_maps.Rd
e9d2ad87ae4a07ea5cb2870e90268714 *man/overviewSNlinks.Rd
24481d7abe85a9dc651ecd573fbcd930 *man/p4_functions.Rd
8bf95a2812dcf07dd06a2eac73c64569 *man/parental_quantities.Rd
6b2a74d99fb1aa0083382af3195270b6 *man/phase_SN_diploid.Rd
b63c5e61828c3ce47f0f5b8e47f094df *man/phased.maplist.Rd
9e2f4d4cb446635b7054285c4747469a *man/plot_hom_vs_LG.Rd
d085b2754579670014ae1877c7c41433 *man/plot_linkage_df.Rd
efebeb6d0ad4b6fd338791deceba04ca *man/plot_map.Rd
9738e1213ed3b5581d8c063e3ff2eb0f *man/plot_phased_maplist.Rd
a0a67fc4f245abb87e5a016483a32bf7 *man/polymapR.Rd
1eeddc0eafe7d3c16b3a76a2a6ad2e90 *man/r2_functions.Rd
4df50c34a4e62e3803ffff4e527a3350 *man/r3_functions.Rd
302ff344c87834fb3ef0045f640ebb0e *man/r4_functions.Rd
71fca15f6604cdd030a0e7030a4ca226 *man/r6_functions.Rd
d4478db1045ea256d8806b97b5d5aa01 *man/r_LOD_plot.Rd
b59bec0c986bed7f94fe44ffff4bc250 *man/screen_for_NA_values.Rd
4d03cc000b8fe1c7798426e45f52fe80 *man/screen_for_duplicate_individuals.Rd
ae3a350a7482f889aab7dfb1c156b01c *man/screen_for_duplicate_markers.Rd
f5a5f09e5ae185b8c1f7e8a03d061f45 *man/split_linkage_info.Rd
18a59d589aad0054c6e28d77ee24a27f *man/test_prefpairing.Rd
30523aed8fa91e64c7752e0415cf8bc6 *man/write.TSNPM.Rd
d3478b21d05fb56ca42034edb1a34a11 *man/write.mct.Rd
b7d3655956e32050adef55c18b58023d *man/write.pwd.Rd
b1b3116cec84666c5e0a2a89c947c486 *man/write_nested_list.Rd
b3bf534528acd7b3f7614927c25cbc8e *man/write_pwd_list.Rd
9e7ee53cf0d8dbecd5dc2724767e0e37 *vignettes/Vignette_polymapR.Rmd
0bc00696958a7f058729f65319e3fc50 *vignettes/bibliography.bib
2a525a4d0bfde9865b47c532ce586782 *vignettes/biomed-central.csl
6b4955e241d15d48f601b17efb676552 *vignettes/figures/figure2.png
7cc64231f7e0b635b4302672b0c9c172 *vignettes/figures/map_diagnostics.png
bdb5d220d0b1d4e9311b51bd4c08dda2 *vignettes/polymapR_vignette.RData
