-
Notifications
You must be signed in to change notification settings - Fork 1
/
Copy pathMD5
153 lines (153 loc) · 8.7 KB
/
MD5
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
747f9f6303f6b9dd2bb880df7ad54b70 *DESCRIPTION
0b9b351793f4ab4fcc7c2386cd6b2b31 *NAMESPACE
65ce8d95700675329f3d7ec62de5c602 *R/aiding_functions.R
22c3c509804d1eb072a7e2122906714e *R/exported_functions.R
6d7df7870655acb3c185e80b9c0d9a69 *R/p4_functions.R
5851a321988249abe1bedb2630456e50 *R/polymapR-package.R
5756f992e2fe114e40522790f31e4806 *R/r2_functions.R
f1848dc2f6781111e8b3057057cd0ffe *R/r3_functions.R
905cf32a6d446281f8b10ac4a16461de *R/r4_functions.R
b7d8ec75868c884e9e94fa1fd2c147fc *R/r6_functions.R
51116ebb4bba3ceb8923fa2b75123ac0 *R/roxygen_datasets.R
121f4576a0451346129c7524c72414e0 *R/sysdata.rda
24bc7c3f5a645905c53152bd3d0b8f61 *build/partial.rdb
c92cff3b199625f11f63848501ee9141 *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
e9bc4e09cc88866ef56066ea09a6b529 *data/chk1.rda
158608afa441499e12bacf0de4697447 *data/exampleRAD_mapping.rda
516d3e7bedd2f19049f6852386c72c35 *data/gp_df.rda
e0f0835837afd99c921d0ade2c9f16dc *data/gp_vignette_data.rda
b6f198a20e2edc9617b05ff38943a413 *data/integrated.maplist.rda
ea784fcddb6d2dccd6b52b513e6a49ff *data/map1.rda
4706a1758495cf78b502a716be54fe2e *data/map2.rda
73c1dc82a04f40cc5e866b369c2e96dd *data/map3.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
7ec1ad14294808bb70905fcda8ffd4bd *data/mout.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
8d840f9ffc27a0beee9d934e99f0eed6 *inst/CITATION
e22f163bc74b9c88cfd058f653423296 *inst/doc/Vignette_genotype_probabilities.R
14a3792fe04e2242af5442f165e70838 *inst/doc/Vignette_genotype_probabilities.Rmd
90c93ad5be9ddf5253181baa67531f2b *inst/doc/Vignette_genotype_probabilities.html
2f0996e027fb8d6570d667a397d13784 *inst/doc/Vignette_polymapR.R
1f41250c97dac15f10bf3c5fe0fd2569 *inst/doc/Vignette_polymapR.Rmd
ef3382783b3862da82985e5308d6be21 *inst/doc/Vignette_polymapR.html
3e40662a7200976af6e9f3fe9a9f3a4b *man/ALL_dosages.Rd
8277578ddc23b54648a5bd4ea61fb955 *man/LGHomDf_P1_1.Rd
25d8d2b2c0ff77e4825c2b37b20d171a *man/MDSMap_from_list.Rd
c8f3faf8ed56be37b6ddf72363dc8fa1 *man/P1_SxS_Assigned.Rd
e9fc1d6ceed431a47a0952406c706102 *man/P1_homologues.Rd
9b82b18a98df9766a583d3b5a04bb11f *man/PCA_progeny.Rd
b01c6550843a4ddcbb50e3dffdca6e65 *man/SNSN_LOD_deviations.Rd
6669c0da3331f14a5718230b91d6bbda *man/SN_SN_P1.Rd
5d094c1d14f533250bfa96446577c9ba *man/add_dup_markers.Rd
c51b14c1e3aa438f945bf01e170bf0b0 *man/all_linkages_list_P1.Rd
19ca9e0f2c10f68115b24ed1f4aea7cd *man/assign_SN_SN.Rd
bdfcd6b1a03f6a09c96e9e2d3c379de1 *man/assign_linkage_group.Rd
a8b9f37dccca7c17771328be021d5c10 *man/bridgeHomologues.Rd
a8bc07e3fa67ce2c9bf5968ffda9d3da *man/calcSegtypeInfo.Rd
450562ab9069414c36b23bcf1c21562e *man/checkF1.Rd
983c0e7a08d008bd27e46f6525f5d8a5 *man/check_map.Rd
84d5de68f11d84501b10f8a73d3246a9 *man/check_marker_assignment.Rd
b798403fe6cf213b75a310a4b0b9cce5 *man/check_maxP.Rd
b87bb3e040c16cdcc821b93cc85cc2e9 *man/chk1.Rd
5b21986348ec26e5c854e539c7d6067b *man/cluster_SN_markers.Rd
7e33c5b774f4771e0c59ebcf83d9eca7 *man/cluster_per_LG.Rd
7b1d920eefff9e105529dd06a0c5dd2d *man/compare_maps.Rd
ffe144096e890ae4d891945475704897 *man/consensus_LG_assignment.Rd
fae4fe58b4dbef5dd3fdeaed6bbd393c *man/consensus_LG_names.Rd
788f21ab3b348a43da0eff0673f79b3e *man/convert_marker_dosages.Rd
4519fad8e721b2e601d729bb86c1e60e *man/convert_polyRAD.Rd
d57e285befec21221de5b99ba003c552 *man/convert_updog.Rd
597ae8deb7e224a6bf2880e94210aa8d *man/correctDosages.Rd
76a5adf3d8f710e44d9ccac3bf290ab0 *man/createTetraOriginInput.Rd
8a20da407a7cfc5c3e3bebce46969d4b *man/create_phased_maplist.Rd
459911929a7886305c34992a130fbd09 *man/define_LG_structure.Rd
991f49c096925678a368bdbfb74c8d70 *man/exampleRAD_mapping.Rd
92bca36f79991bccdc7b6a32d5c70fc9 *man/finish_linkage_analysis.Rd
963b09a7e0e1ab7d5b12ce38ddb07129 *man/get_markertype_combinations.Rd
f8852ea755f4b809ab9e155fdf214439 *man/gp_df.Rd
c34a75733491d6829dada25e58e2c704 *man/gp_overview.Rd
7f1626d3b7205ccaf7a8e1ee6b928d74 *man/gp_vignette_data.Rd
e90066894512249a12bde68f5c783550 *man/homologue_lg_assignment.Rd
9bd3ed74dd1a5a5c02881d203d547564 *man/integrated.maplist.Rd
e92407fab41bb471a4acd8b3bc606e40 *man/linkage.Rd
7323815622b14ce89efc76ec87224301 *man/linkage.gp.Rd
a7c8959978e20fdd7c9dbd44464afc7f *man/map1.Rd
bc0229f1e03410731a8ad5c5fb584ef5 *man/map2.Rd
93eb6c96bc6357b722fe4756b8dd4573 *man/map3.Rd
c6432fab1d5429c23fd253a4858921e8 *man/maplist_P1.Rd
a37da6a7aed2e5b6344c7d9c7f55e1ef *man/marker_binning.Rd
7b2cb0a2be420a253fd15446aefcfbb5 *man/marker_data_summary.Rd
f8cc4b4b5a48a33a0b689e4d26b02642 *man/merge_homologues.Rd
72bc16360d7fbb459d856df9085c811e *man/mout.Rd
7d55350b77e8fcb539b178eeec093646 *man/overviewSNlinks.Rd
23e81cbcee3511e80313a7ebf7067754 *man/p4_functions.Rd
a65775d971e1463b80a6cf2002569ec5 *man/parental_quantities.Rd
0b49ce4a9c774524e42a3828ff7633a0 *man/phase_SN_diploid.Rd
512abeb454fa0b5d1219e77fcb2ae498 *man/phased.maplist.Rd
6abaa841273b083f70f5375e8592ba57 *man/plot_hom_vs_LG.Rd
3b4dae970b648ea6a4360a389688424a *man/plot_map.Rd
df097a7e61d993a7fcd552d9a8edaea9 *man/plot_phased_maplist.Rd
a260c2e4a77147cd279243db7490588f *man/polymapR-package.Rd
3de384bf3cda08c8d70e83b50212618a *man/r2_functions.Rd
00aa7071d78e3c82d49027825368d475 *man/r3_functions.Rd
06be89ac35f2a24b7d8836336b2f640b *man/r4_functions.Rd
b196bfe0083727bd8ae6c8913a49a0a2 *man/r6_functions.Rd
da05565748bc31f161c3231c70e27df1 *man/r_LOD_plot.Rd
1bfd9b7436c1692aabdf16f65e185361 *man/screen_for_NA_values.Rd
0a10777bbbf2032b80c9531098960577 *man/screen_for_duplicate_individuals.Rd
16749bca4729c07e1ca2912e68aabea9 *man/screen_for_duplicate_individuals.gp.Rd
65c46fc63fca13456dc38964a682f74d *man/screen_for_duplicate_markers.Rd
7be606048955f644f330b55f3c3a0663 *man/test_prefpairing.Rd
b1e9d773ad64f1b29ffd9ddc8e4b1246 *man/write.TSNPM.Rd
35a7027ace86217619389e3d7b275b1a *man/write.mct.Rd
a9d987c8e2786ece522553bb640a8fc0 *man/write.pwd.Rd
2a60e42fd8d8544f7940b9581628bc20 *man/write_nested_list.Rd
84937cc1d4fe8254ef1a8d59d352a755 *man/write_pwd_list.Rd
14a3792fe04e2242af5442f165e70838 *vignettes/Vignette_genotype_probabilities.Rmd
1f41250c97dac15f10bf3c5fe0fd2569 *vignettes/Vignette_polymapR.Rmd
7320318f1b6440305b53fdd9c96bc587 *vignettes/bibliography.bib
2a525a4d0bfde9865b47c532ce586782 *vignettes/biomed-central.csl
5dc658364062570363f2d3e716151347 *vignettes/data
a5fd82de83b40774bd0ca26515efe899 *vignettes/figures/LG1_check_map_plotA.png
a1115d015d3392b1c5fd9a307d305477 *vignettes/figures/LG1_check_map_plotB.png
62117229351313b470e892395319ab45 *vignettes/figures/P1_bridges.png
74174c3d6144b73b9c7ee7ea1d7566d0 *vignettes/figures/P2_bridges.png
c56c6fb5245ee6c2097a56cba6da586c *vignettes/figures/cluster_per_LG_P1.3.png
4d56a44042f27741a7a09bd8519af40a *vignettes/figures/dup_indivs.png
fd6b268afeacdc07e973e79e4628d155 *vignettes/figures/gp_overview.png
aee4e74ba418da7d79366f48d2af7eac *vignettes/figures/maxPdist.png
3bd61490eb47776b4e3f6b13b01c9b18 *vignettes/figures/meiosis_4x.png
242c27adf716ebdbbebaa72e273490a2 *vignettes/figures/p1_clustering_gp.png
90c5360f78726c6248bbe0e0b30d1488 *vignettes/figures/p2_clustering_gp.png
d8f753b0f7c1856fe4a80d206dfa1b97 *vignettes/polymapR_vignette.RData