File: MD5

package info (click to toggle)
r-cran-adegenet 2.1.5-1
  • links: PTS, VCS
  • area: main
  • in suites: bookworm, sid
  • size: 4,820 kB
  • sloc: ansic: 1,427; sh: 9; makefile: 5
file content (222 lines) | stat: -rw-r--r-- 11,488 bytes parent folder | download
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
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
a28c070b21f757b6a344ffa27c3f0ca4 *ChangeLog
45127112179ad71c46bbdcc1823c272d *DESCRIPTION
dfa68f818c2fe29783780f4c924869f4 *NAMESPACE
5ebf3ab120b8dc51059621f42255e069 *R/AIC.snapclust.R
957a38141833031d3003f04796430466 *R/AICc.snapclust.R
ebcd402640f7606dc419654c6293fefa *R/BIC.snapclust.R
872c8ca388f1bb2990513034e17011d9 *R/HWE.R
e15a6bd7d43060f74695502fa53bf86c *R/Hs.R
3dc4032b28c23600a13e55a9bcf03d86 *R/KIC.snapclust.R
33a612fe584815666b9bc9082557ce1a *R/PCtest.R
4742e70d1c39f6e484f75d6e320168f3 *R/SNPbin.R
28e919c4b96ece0f4cace1c55318a55a *R/accessors.R
84e11f18ef037cfbe863f5c8db6df080 *R/adegenet.package.R
8b7e90b6cdb2c75a642893b5f685c876 *R/auxil.R
0723487b8e4195e58fd94967586b398b *R/basicMethods.R
b552db935be229fd9d146d41e3c42cbd *R/chooseCN.R
2dfb172b9f06057918208e5b6faf92ac *R/classes.R
5d0497800ffe7562f61ce7eef5b24983 *R/colorplot.R
50a990b28c74d01dd26e9162ee8c9391 *R/compoplot.R
933a07671b9788b66fbde6cde7d96053 *R/constructors.R
ab1e2184b59ca229cb476243ff1ceeea *R/coords.monmonier.R
bf2a4d0169007076390c80c683faa465 *R/dapc.R
bc70dc273ed99444dcd8549de27e1210 *R/datasets.R
77646de56b068166ce59aeb7420e3a94 *R/dist.genlight.R
852a9004af860fd07866df62ecfaebe4 *R/dist.genpop.R
c31c91412be03aac5f39c910b20ccd81 *R/doc_C_routines.R
e9927969f66c1fb7749abc774923582a *R/export.R
cf84f3eecba1bfc7ec615b95da707c11 *R/export_to_mvmapper.R
b6eba8bebe6df909a24b48d404457138 *R/find.clust.R
f05ecfcf1dfd3285337e364710cf80b0 *R/fstat.R
15b069d29f140a15c3be3163326e8de8 *R/gengraph.R
75f9e99579b6b7be57ee2cedd99fada8 *R/genind2genpop.R
ebae2b229a9a488467c038e0e49eb11c *R/glFunctions.R
7b459ebdcfb415d28f73b256ccf4154f *R/glHandle.R
305b56351e4d6f3b2bccb34819f61488 *R/glPlot.R
f2a8fbea1d1ff39c304637a8f1520c9b *R/glSim.R
3a0463e7f263ce83369077c06cf0e8b0 *R/global_local_tests.R
0d2123ab0b7f862bdaa7f5b87e3a884d *R/gstat.randtest.R
9554f3a90d8c386ef9433c83e24e5d60 *R/handling.R
644ce520d49e52b8e933705d13e4aaf7 *R/haploGen.R
90c2d9985882a2b4108e89be08d2d1ec *R/haploPop.R
0ac4bc04ff3a7ce8835ca77246c78cf4 *R/hierarchyMethods.R
4b5ca941081b19b9fe6bd7fce3aa962b *R/hybridize.R
91b782455f91c74b735a2fe023c2ff38 *R/import.R
1bd985d69b3cff1a1cea29b30da8f4b9 *R/inbreeding.R
4f1cca414a7ec260449ad5ef5a526c67 *R/loadingplot.R
c87829e43be8d3a38526c41928ed7740 *R/makefreq.R
ddddfa12454fd2150f177d9fdf7d6a55 *R/minorAllele.R
b67be44971bde39eafcb83418ac7c3d0 *R/monmonier.R
f6c369b7933a28ffc3667f9bcb106a26 *R/mutations.R
132c366b1550c82d26d93d9d76f17060 *R/old2new.R
d2dac63f521fc485890d7b6efc338da0 *R/orthobasis.R
174133e6140b69ab53e81b404bd2e9fe *R/pairDist.R
3d7bfc72bb7585a40c27d8431eb748e2 *R/propShared.R
ce8cdf2b4947ff9f56e15c957abd1074 *R/propTyped.R
d26f4532dc66a292e7cdb4706e6a50e1 *R/scale.R
f3754052ba4e1be2a967333b57606d21 *R/seqTrack.R
83d38fa9f6e82fcf7c1be3bdf50d841e *R/sequences.R
c8067fab3348da179bbc350cece12460 *R/servers.R
9557bafa0653db0c09b4b7ff39776683 *R/setAs.R
baa7026747e5668ce0b8b50d0ee769dd *R/showmekittens.R
684cd5c34cbda7c5360e992401df68f9 *R/simOutbreak.R
ffbd8f9ad91830b23abb9aa81ff6990e *R/snapclust.R
eb1f67d0dacc64e14de733d7a186f469 *R/snapclust.choose.k.R
4da0ad18c9806384a2e0187d45537f0d *R/snpposi.R
2d172fbdead950ca125a09e7db041c16 *R/snpzip.R
cd64da0d1b7963d862446c3a22c2e8e4 *R/spca.R
3ecfe5fcc822f032b4f4aab8a581c3bc *R/spca_randtest.R
1b132461c8acb40e2ba2980f8736a189 *R/strataMethods.R
05a21896d8d0e2f6a53ff3482e47500e *R/xvalDapc.R
f761930965125553d0453667aa1a2889 *R/zzz.R
6ae85fd9f4543403d7230d5395662a2c *README.md
ec17e0f21ada99e0edeb8fd4157d51f3 *build/partial.rdb
79c5fded040c07c0cc46151a03477a80 *data/H3N2.rda
2a756c196a751aa57ec2e89baffd3f9e *data/dapcIllus.rda
5a9e844b8fb67ec8d740b8100577c71f *data/datalist
a70c2acfa18a4988af9b6dd018f75aee *data/eHGDP.rda
4437bcfff940bf7684912622a831df8a *data/hybridtoy.RData
e97f01bba2f86732b7ee523c3fdf7ea0 *data/microbov.rda
ac20a9e99093900814ff19adec586914 *data/nancycats.rda
b2440450c4ab49e892b9029635861038 *data/rupica.RData
81210ebc3f9b7464aa122e53a68da110 *data/sim2pop.rda
ac6ab4663f2cac56bbcce7d2c5a8226e *data/spcaIllus.rda
a881174f90a00db6bc47d0b4261f1593 *data/swallowtails.rda
66f7dc09e53d6bc383bdf5e6ae0b6a1a *inst/CITATION
3195d9e41d03a862de02a0049c436cd4 *inst/dapcServer/server.R
f4ad07cc4532088da6a4749c1e766cd8 *inst/dapcServer/ui.R
b238281dbcc6d55bcd2734ba411f07ce *inst/files/AFLP.txt
49b9a3f1ef1077d0df084fa3ce75d74d *inst/files/exampleSnpDat.snp
efffc3d7647766c9483d8b542e17f378 *inst/files/mondata1.rda
ab18dea09d5420d37fac8beb853ebbcc *inst/files/mondata2.rda
e2de2f29bf9ddf542dc702fe55a2c856 *inst/files/nancycats.dat
acb01bfa665d1196781c74be410fe0e1 *inst/files/nancycats.gen
6030896bc4195f3c22a950b7fd04397c *inst/files/nancycats.gtx
691f4618c408859df0b9f915735bcf6c *inst/files/nancycats.str
b071452ae7320a21b0709f5533275504 *inst/files/pdH1N1-HA.fasta
a03a7f02d49aded8184a4e8cc8a55b55 *inst/files/pdH1N1-NA.fasta
4d54bb83efe0c672869028631a51fea0 *inst/files/pdH1N1-data.csv
fcf05e7574e9d74db2daafe779198e47 *inst/files/swallowtails_loc.csv
7a5e71b7e9963effe18c1e17562f43e9 *inst/files/usflu.fasta
12f7f2e1b045b1bed12ae54c760b1c75 *man/AIC.snapclust.Rd
9df7d858d63361e0d2e6fc62e562fb76 *man/AICc.Rd
8ebef7c898cba944052d3f75147ddc4f *man/BIC.snapclust.Rd
b7f5d710e586d12002157ff407af8268 *man/H3N2.Rd
f801d68f4276b8305742d7a41110754e *man/HWE.Rd
2f63cf0ec193a67ff35af9d60a0a0f49 *man/Hs.Rd
0fb8e0345704f613d846c0fe66e28d08 *man/Hs.test.Rd
e15c29481a4c8c8f26930eaac64ad229 *man/KIC.Rd
4824fe0317d5c93cb6bfae831e7138e4 *man/SNPbin.Rd
063ca7d37e94f67cce3d35102d1d80ea *man/accessors.Rd
b94c30c7361735a91815ca5095fef293 *man/adegenet.package.Rd
3655909f5122cfa1318df7c38631e9d7 *man/as-methods.Rd
f7797181705e63eb7e49617c382190d8 *man/as.SNPbin.Rd
1300e25b1e6dd3b319d2e5e5b6c9e5c9 *man/as.genlight.Rd
4356bad7f32cee5d0fd3c6507de19299 *man/ascore.Rd
603f7ed59afb9ba8bd665968ca23504c *man/auxil.Rd
162e124365a675c73081632a7d1f75e8 *man/chooseCN.Rd
565439f76e58a83e842df3a5fb5cf497 *man/colorplot.Rd
b85b6dbcb2c414e46b6dddb0fb3d26cb *man/compoplot.Rd
5dadcdda5c96dfad346e1c98fac14afe *man/coords.monmonier.Rd
10142abd4e529f162de66960893b9506 *man/dapc.Rd
157103133a3b2b7e9f4b7a169e91c0cf *man/dapcGraphics.Rd
daa9512d4d4e8432a10111db2c445d92 *man/dapcIllus.Rd
68d4c7181a842c638fb5b9bd2337c5a2 *man/df2genind.Rd
60d761d726d79674e12aa5266d238b29 *man/dist.genpop.Rd
13839116c3d245a59143b49439b1ee7c *man/doc_C_routines.Rd
059f207df9de286bbc2fa6c864b05780 *man/eHGDP.Rd
2d2cb8268a9161da01ed52cc4f74be32 *man/export_to_mvmapper.Rd
6a5c68da68b27901931b2bbe468a3be5 *man/fasta2DNAbin.Rd
19abb649f8c4f1f32b4b5027f861695e *man/fasta2genlight.Rd
98f47e6a8618f39e848e0db0417ddf47 *man/find.clusters.Rd
effd15da9c3eb41873b1bc143a61106b *man/gengraph.Rd
f87cc6e91245b4e8934dbe8aa2a70f9f *man/genind.Rd
92c035ba7f3a159ecb6a6b71421594de *man/genind2df.Rd
3ad7ae9ac1e4c96cbd595a50acb071b7 *man/genind2genpop.Rd
7538c86b74a61be0b8fefbc49a3c6a20 *man/genlight.Rd
24158e177d5c9947dc68ba0404dc7a12 *man/genpop.Rd
2b7ada9b0143e152b814ff71391f82f4 *man/glAux.Rd
978499ada3ebd331a15d91220c8dd61e *man/glPca.Rd
86f001c538892609caf73ae32b8a09d4 *man/glPlot.Rd
bd35b2e6699e062e6c0c974bbc721769 *man/glSim.Rd
dcf52612726ba98e96b2d34d5c686138 *man/haploGen.Rd
3957a1a5cbe1cb8ae26ae64fdb0588cd *man/hierarchy-methods.Rd
aa699a7e37619b927e0c2496baa67d99 *man/hybridize.Rd
ae292c2517aa7814f7d1f970bb5b3182 *man/hybridtoy.Rd
b7ebb10ed1bafdc8f81df936ca35b795 *man/import2genind.Rd
353eb2a9cf1a255cc11a4039e15e64a8 *man/inbreeding.Rd
883de57c061c78d2fcdef931d3c238bd *man/isPoly.Rd
36bbe66ad58c913523864910f83078cd *man/loadingplot.Rd
9beba7ba96a08e8c719438c49e9f339d *man/makefreq.Rd
355a93b6ca20aca3a415bab7542a5af2 *man/microbov.Rd
5ac9b81619dfb53d86504a6a4a1268fb *man/minorAllele.Rd
680500e08a6ce86477fe9d57820dc80d *man/monmonier.Rd
c12df9c827ed9633a19eca5c0b5cf8eb *man/mutations.Rd
21b0898c7c40bdc6aeeb70dee4c0d57a *man/nancycats.Rd
da5a60e254619a1497c839d30b63049c *man/new.genind.Rd
86917617828bfc30761b93a6fc0fff1c *man/new.genpop.Rd
066e33567079086c6604e1f7e7bb211b *man/old2new.Rd
c97cf4b6c593ac021696d610acfb9bee *man/pairDist.Rd
3b91f7f91e77717ca360d4e09bf28497 *man/population-methods.Rd
4ba1759cd430dd21d302ee68c1bb5268 *man/propShared.Rd
4bbbe806dc95685a8cdc1df771203347 *man/propTyped.Rd
27f7e7e85338614ee543b5a17b760e01 *man/read.PLINK.Rd
370de6b5e77078307fe24af3ca534eff *man/read.fstat.Rd
e76cab7735bfdcb6e5ba404d255a6e9a *man/read.genepop.Rd
58d0f7d0db64539ef7011622ab7f72c5 *man/read.genetix.Rd
ff7445996518fbfddf3b6557422e30d0 *man/read.snp.Rd
24e1a7fc2b5011b78eacbeba07fdebcc *man/read.structure.Rd
40cd398e5e1c99246b1fb4651a46cff0 *man/repool.Rd
46379972dd6bc7457958dcbecbcbfe27 *man/rupica.Rd
e21d386c0336c7c2d734e95ab683ae17 *man/scaleGen.Rd
39849f4514f0ad829b7cec2ab9df74eb *man/selpopsize.Rd
5698f677468fa2beea2d00622c903bdc *man/seploc.Rd
e020ce4649f860a402662c34ecce2abe *man/seppop.Rd
233b9513b37ba3c94022bde86e8f6e38 *man/seqTrack.Rd
91fd7b6b7e1cebbca9bba3fb3f01cbbe *man/sequences.Rd
06dd5656412bd10552e1351a32177f74 *man/servers.Rd
af52442bf33bab046ff121b0aa1355f2 *man/showmekittens.Rd
ac89e5ad6d3b451c72483c14c0c00e16 *man/sim2pop.Rd
3889adfa5b57b1f7fdbc222741da4709 *man/snapclust.Rd
f1a37774b533164d26949f125583e877 *man/snapclust.choose.k.Rd
8238f9fb5eec829a1978445a5bd5431b *man/snpposi.Rd
a07dc761eaed6ce13e3ba2c1ef1c7949 *man/snpzip.rd
b8478f2203f480e09bfaaadd2ebc55ae *man/spca.Rd
c657d396cb519d8be6a9eed6848dc2a9 *man/spca.rtests.Rd
d2577c7fcf5c221c8a1b62daabc13244 *man/spcaIllus.Rd
4b95bf51a91698da2894d8440b729e59 *man/spca_randtest.Rd
0c4910974db9c87977b03c11b32fefc4 *man/strata-methods.Rd
f3b25293162e571f794d148dd18646f2 *man/swallowtails.Rd
bf2ebfa9d288d365ec580378e148b1d2 *man/tab.Rd
5b0ca85d0125eeb2c597e88a16a92dde *man/truenames.Rd
2f14395a0ee936db9b13dcdef500b2aa *man/virClasses.Rd
aa458e8a7442bb7f436cb7efa3d27155 *man/web.Rd
09d7c0499ed779fd0f430d2b9e0027d3 *man/xvalDapc.Rd
3bd8bc67659887935c2085e36fdf723d *src/GLfunctions.c
7fa800842c28da56c0bbcb8c330017d1 *src/GLfunctions.h
1f6a617c93fba4457f732ac048df9aa9 *src/adesub.c
fede1fa0994f4422788d288a681c5c2d *src/adesub.h
53e256a63374b8c888eb1704b81ed06c *src/init.c
7b131de94b94753b4025ad01e733d887 *src/monmonier-utils.c
30a3776e7b777916198cf651f234dca4 *src/sharedAll.c
8d25c1b6b009f32d9e94ad8a381f5559 *src/snpbin.c
01223918611fabb05f182e35199dc4de *src/snpbin.h
902d68e0a32942936d7bcac7de400bfe *tests/testthat.R
a4741000c21083b73369b373a13098b2 *tests/testthat/Rplots.pdf
1e059ba9872ee43edeec99b3482d9baa *tests/testthat/test-findclust.R
242f851f5434f1d0f193ebb3671925e6 *tests/testthat/test-genind2genpop.R
01622b18130f09e1b609c9f349a56ceb *tests/testthat/test-prop.R
f6baa9d24f4f94cc93aec41b876a83d8 *tests/testthat/test-seppop.R
6e3e5545a7934c8d9a03bfd755142a7f *tests/testthat/test_accessors.R
64c69022f9d492be121322178f080618 *tests/testthat/test_compoplot.R
439335b7a33235df9b82fe46c0ef281d *tests/testthat/test_constructors.R
49f987a2e95b357d5f5344f97d78f9a4 *tests/testthat/test_conversion.R
1443018b5340fd051f09b1448704bbc9 *tests/testthat/test_genlight.R
c31694f2ca8274b384573c03cad7b985 *tests/testthat/test_haploGen.R
ccd5739145221bdd955216745efb773b *tests/testthat/test_hierarchy.R
72fd9554b35634cc08b80a74591b68e1 *tests/testthat/test_import.R
43081888c6ce3bc1de98749d97083d79 *tests/testthat/test_repool.R
6ea3c651b94782ce41dff5cc0d276dcf *tests/testthat/test_snapclust.R
9c948ede454b03a238d17cb9f2e9efa3 *tests/testthat/test_subset.R
641aa35f562b26c0a2de99a473c212e0 *tests/testthat/test_summary.R
dadd0a55f6ec8ca7953f1e35722ea76e *tests/testthat/test_xval.R