8b9f535 | Isaac Overcast | 01 August 2020, 21:34:24 UTC | "Updating ipyrad/__init__.py to version - 0.9.57 | 01 August 2020, 21:34:24 UTC |
53dfd7d | Isaac Overcast | 01 August 2020, 21:11:52 UTC | Add functionality to pca to allow adding easy text titles to the plots with the param | 01 August 2020, 21:11:52 UTC |
e6ed7d5 | Isaac Overcast | 01 August 2020, 14:54:26 UTC | Document writing pca figure to a file | 01 August 2020, 14:54:26 UTC |
4866826 | Isaac Overcast | 01 August 2020, 14:50:38 UTC | Merge branch 'master' of https://github.com/dereneaton/ipyrad | 01 August 2020, 14:50:38 UTC |
37568d6 | Isaac Overcast | 01 August 2020, 14:50:30 UTC | Allow pca.draw() to write out pdf and svg | 01 August 2020, 14:50:30 UTC |
c57da2a | eaton-lab | 23 July 2020, 15:35:02 UTC | force option to remove cftable in snaq | 23 July 2020, 15:35:02 UTC |
b19df8a | eaton-lab | 22 July 2020, 19:38:48 UTC | fix ntaxa in phy header for lex | 22 July 2020, 19:38:48 UTC |
fca497a | eaton-lab | 22 July 2020, 17:22:55 UTC | mb ipcoal doc up | 22 July 2020, 17:22:55 UTC |
3fdbc29 | eaton-lab | 22 July 2020, 16:18:03 UTC | get locus phy uppers | 22 July 2020, 16:18:03 UTC |
a1bae65 | eaton-lab | 22 July 2020, 16:14:09 UTC | Merge branch 'master' of https://github.com/dereneaton/ipyrad | 22 July 2020, 16:14:09 UTC |
3269559 | eaton-lab | 22 July 2020, 16:14:08 UTC | cosmetic | 22 July 2020, 16:14:08 UTC |
9a009b1 | eaton-lab | 22 July 2020, 16:13:45 UTC | changed default nboots in baba | 22 July 2020, 16:13:45 UTC |
9011ba6 | eaton-lab | 22 July 2020, 16:13:26 UTC | cosmetic | 22 July 2020, 16:13:26 UTC |
fe14e05 | eaton-lab | 22 July 2020, 16:13:12 UTC | cosmetic | 22 July 2020, 16:13:12 UTC |
d4d184b | Isaac Overcast | 20 July 2020, 08:34:19 UTC | cosmetic | 20 July 2020, 08:34:19 UTC |
e72e6d6 | Isaac Overcast | 14 July 2020, 20:50:42 UTC | Set pandas max_colwidth=250 to allow for very long sample names. | 14 July 2020, 20:50:42 UTC |
3db851c | Isaac Overcast | 14 July 2020, 20:50:11 UTC | Fix oops in step 7 where trim_loci 3' R1 wasn't being used. | 14 July 2020, 20:50:11 UTC |
6ac32fd | Isaac Overcast | 14 July 2020, 17:25:09 UTC | Allow imap pops to be specified as np.ndarray in snps_extracter | 14 July 2020, 17:25:09 UTC |
5a35e9e | Isaac Overcast | 14 July 2020, 12:18:21 UTC | cosmetic | 14 July 2020, 12:18:21 UTC |
53b103d | deren | 14 July 2020, 01:52:32 UTC | Merge branch 'master' of https://github.com/dereneaton/ipyrad | 14 July 2020, 01:52:32 UTC |
8e9c5f4 | deren | 14 July 2020, 01:52:31 UTC | cosmetic | 14 July 2020, 01:52:31 UTC |
82def2a | deren | 13 July 2020, 21:07:30 UTC | fix path snaq log | 13 July 2020, 21:07:30 UTC |
c170935 | Isaac Overcast | 10 July 2020, 16:19:44 UTC | cosmetic | 10 July 2020, 16:19:44 UTC |
99062c4 | Isaac Overcast | 10 July 2020, 16:07:59 UTC | Fix branching oops | 10 July 2020, 16:07:59 UTC |
3e98108 | eaton-lab | 09 July 2020, 15:09:25 UTC | snaq working | 09 July 2020, 15:09:25 UTC |
ea51c96 | eaton-lab | 09 July 2020, 15:06:15 UTC | snaq | 09 July 2020, 15:06:15 UTC |
ce8c94f | deren | 09 July 2020, 15:05:39 UTC | network updated | 09 July 2020, 15:05:39 UTC |
39526cd | eaton-lab | 09 July 2020, 13:44:37 UTC | testing network analysis | 09 July 2020, 13:44:37 UTC |
74679f2 | eaton-lab | 06 July 2020, 22:07:10 UTC | ast conda bin path fix | 06 July 2020, 22:07:10 UTC |
bd75c07 | eaton-lab | 06 July 2020, 22:00:51 UTC | ast conda bin path fix | 06 July 2020, 22:00:51 UTC |
f1dbcd4 | eaton-lab | 06 July 2020, 21:58:03 UTC | Merge branch 'master' of https://github.com/dereneaton/ipyrad | 06 July 2020, 21:58:03 UTC |
c61b0d2 | eaton-lab | 06 July 2020, 21:57:54 UTC | ast conda bin | 06 July 2020, 21:57:54 UTC |
e68cedc | Isaac Overcast | 29 June 2020, 20:24:07 UTC | "Updating ipyrad/__init__.py to version - 0.9.56 | 29 June 2020, 20:24:07 UTC |
ac85a81 | eaton-lab | 27 June 2020, 14:00:16 UTC | Merge branch 'master' of https://github.com/dereneaton/ipyrad | 27 June 2020, 14:00:16 UTC |
30e9259 | eaton-lab | 27 June 2020, 13:59:59 UTC | revise installation docs to add conda-forge recommendation to reduce conflict errors | 27 June 2020, 13:59:59 UTC |
ffbb852 | Deren Eaton | 27 June 2020, 13:46:49 UTC | update README install instructions | 27 June 2020, 13:46:49 UTC |
a115f2a | eaton-lab | 27 June 2020, 02:13:23 UTC | "Updating ipyrad/__init__.py to version - 0.9.55 | 27 June 2020, 02:13:23 UTC |
00db37f | eaton-lab | 25 June 2020, 14:58:47 UTC | bpp with ipcoal demoup | 25 June 2020, 14:58:47 UTC |
7752d72 | eaton-lab | 25 June 2020, 05:55:13 UTC | update tmx tool for toytree v2 | 25 June 2020, 05:55:13 UTC |
63caf25 | eaton-lab | 25 June 2020, 05:54:41 UTC | cosmetic | 25 June 2020, 05:54:41 UTC |
23468ce | eaton-lab | 25 June 2020, 05:54:30 UTC | cosmetic | 25 June 2020, 05:54:30 UTC |
59ea3fd | eaton-lab | 25 June 2020, 05:54:14 UTC | conversion funcs in snps_extracter | 25 June 2020, 05:54:14 UTC |
ef6717f | eaton-lab | 25 June 2020, 05:53:10 UTC | binder add ipcoal and CF as first env | 25 June 2020, 05:53:10 UTC |
8e219f2 | eaton-lab | 25 June 2020, 05:43:25 UTC | ipcoal terremix docs | 25 June 2020, 05:43:25 UTC |
f0c0b06 | eaton-lab | 25 June 2020, 05:11:14 UTC | tool and docs for genotype freq conversion output | 25 June 2020, 05:11:14 UTC |
073775c | eaton-lab | 25 June 2020, 05:10:40 UTC | tool and docs for genotype freq conversion output | 25 June 2020, 05:10:40 UTC |
3497046 | eaton-lab | 24 June 2020, 14:43:59 UTC | Merge branch 'master' of https://github.com/dereneaton/ipyrad | 24 June 2020, 14:43:59 UTC |
e9b385b | eaton-lab | 24 June 2020, 14:43:21 UTC | baba ipcoal notebook | 24 June 2020, 14:43:21 UTC |
396b0a8 | Isaac Overcast | 21 June 2020, 12:14:24 UTC | update 2brad docs slightly | 21 June 2020, 12:14:24 UTC |
2ee059e | Isaac Overcast | 18 June 2020, 14:05:33 UTC | Merge branch 'master' of https://github.com/dereneaton/ipyrad | 18 June 2020, 14:05:33 UTC |
08a7091 | Isaac Overcast | 18 June 2020, 14:05:24 UTC | Add force flag to force overwrite vcf_to_hdf5 (prevent redundant conversion) | 18 June 2020, 14:05:24 UTC |
c919bd1 | eaton-lab | 15 June 2020, 15:25:42 UTC | better prior plots and transformers | 15 June 2020, 15:25:42 UTC |
02ed1b0 | eaton-lab | 15 June 2020, 15:25:16 UTC | mb more prior options and fixed tree support | 15 June 2020, 15:25:16 UTC |
304427a | eaton-lab | 15 June 2020, 15:24:42 UTC | pca allow setting colors | 15 June 2020, 15:24:42 UTC |
3270183 | eaton-lab | 11 June 2020, 17:51:03 UTC | pca cna set opacity | 11 June 2020, 17:51:03 UTC |
e730169 | eaton-lab | 11 June 2020, 17:44:55 UTC | pca cna set opacity | 11 June 2020, 17:44:55 UTC |
888ef67 | eaton-lab | 11 June 2020, 17:39:14 UTC | pca cna set opacity | 11 June 2020, 17:39:14 UTC |
f723b42 | eaton-lab | 11 June 2020, 17:32:20 UTC | pca cna set opacity | 11 June 2020, 17:32:20 UTC |
553a99d | eaton-lab | 11 June 2020, 05:50:25 UTC | fix to allow custom colors in pca | 11 June 2020, 05:50:25 UTC |
38dd044 | eaton-lab | 11 June 2020, 03:07:21 UTC | Merge branch 'master' of https://github.com/dereneaton/ipyrad | 11 June 2020, 03:07:21 UTC |
9cb4574 | eaton-lab | 11 June 2020, 03:07:19 UTC | docs | 11 June 2020, 03:07:19 UTC |
320e9f2 | eaton-lab | 10 June 2020, 21:21:07 UTC | fix py2 compat | 10 June 2020, 21:21:07 UTC |
869739a | eaton-lab | 10 June 2020, 21:20:20 UTC | wex ints | 10 June 2020, 21:20:20 UTC |
a2304bf | Isaac Overcast | 10 June 2020, 21:05:46 UTC | fix api oops in window extracter docs for scaffold_idxs | 10 June 2020, 21:05:46 UTC |
f5dd54e | eaton-lab | 10 June 2020, 20:41:58 UTC | wex start end as ints | 10 June 2020, 20:41:58 UTC |
91a652c | eaton-lab | 10 June 2020, 17:03:54 UTC | re-supporting single or multiple locs/chrom in wex | 10 June 2020, 17:03:54 UTC |
830dd55 | eaton-lab | 10 June 2020, 15:11:58 UTC | option to not subsample SNPs | 10 June 2020, 15:11:58 UTC |
60017d3 | eaton-lab | 10 June 2020, 15:10:22 UTC | add mrbayes keepdir arg to organize files | 10 June 2020, 15:10:22 UTC |
21cbb5a | eaton-lab | 10 June 2020, 15:09:49 UTC | simplified wex | 10 June 2020, 15:09:49 UTC |
61cdac8 | eaton-lab | 09 June 2020, 20:18:12 UTC | extracter filters invariant sites when subsampled by IMAP | 09 June 2020, 20:18:12 UTC |
807fae8 | eaton-lab | 09 June 2020, 20:17:27 UTC | added pca panel plot | 09 June 2020, 20:17:27 UTC |
3a90ae3 | eaton-lab | 09 June 2020, 18:44:51 UTC | subsample loci jit for snps_extractor of linked SNPS | 09 June 2020, 18:44:51 UTC |
5f7f130 | eaton-lab | 09 June 2020, 18:44:14 UTC | major baba2 update, to replace baba eventually | 09 June 2020, 18:44:14 UTC |
fbcbb80 | eaton-lab | 05 June 2020, 04:22:43 UTC | Merge branch 'master' of https://github.com/dereneaton/ipyrad | 05 June 2020, 04:22:43 UTC |
cbc00ee | eaton-lab | 05 June 2020, 04:22:33 UTC | axes label fix and figt cleanup | 05 June 2020, 04:22:33 UTC |
7059522 | eaton-lab | 05 June 2020, 04:21:52 UTC | handle int chrom names | 05 June 2020, 04:21:52 UTC |
790b0c4 | eaton-lab | 05 June 2020, 04:20:40 UTC | cosmetic | 05 June 2020, 04:20:40 UTC |
a57a23f | Isaac Overcast | 31 May 2020, 20:58:40 UTC | "Updating ipyrad/__init__.py to version - 0.9.54 | 31 May 2020, 20:58:40 UTC |
81d2fce | deren eaton | 30 May 2020, 03:42:10 UTC | off-by-one to ref pos in s3 applied again here | 30 May 2020, 03:42:10 UTC |
ee1e84c | Isaac Overcast | 19 May 2020, 10:02:56 UTC | "Updating ipyrad/__init__.py to version - 0.9.53 | 19 May 2020, 10:02:56 UTC |
c0331d9 | Isaac Overcast | 19 May 2020, 10:02:37 UTC | Fix off by 1 error in step 3 for PE data. | 19 May 2020, 10:02:37 UTC |
ef5a74c | Isaac Overcast | 11 May 2020, 20:20:06 UTC | Fix toytree documentation in baba cookbook | 11 May 2020, 20:20:06 UTC |
a8f9915 | Isaac Overcast | 09 May 2020, 21:51:52 UTC | Fix py2 compat by removing trailing commas from function argument lists in a couple of anaysis tools. | 09 May 2020, 21:51:52 UTC |
4be8a31 | Isaac Overcast | 09 May 2020, 21:29:21 UTC | Fix oops in handling errors during convert_outputs | 09 May 2020, 21:29:21 UTC |
f09113d | Isaac Overcast | 09 May 2020, 18:03:35 UTC | "Updating ipyrad/__init__.py to version - 0.9.52 | 09 May 2020, 18:03:35 UTC |
fd8e0d1 | Isaac Overcast | 09 May 2020, 18:03:16 UTC | Fix nasty off-by-one error in reference positions | 09 May 2020, 18:03:16 UTC |
5cdb266 | Isaac Overcast | 09 May 2020, 14:49:54 UTC | Merge branch 'master' of https://github.com/dereneaton/ipyrad | 09 May 2020, 14:49:54 UTC |
29525fd | Isaac Overcast | 09 May 2020, 14:49:46 UTC | cosmetic | 09 May 2020, 14:49:46 UTC |
fbd0d6a | eaton-lab | 08 May 2020, 05:28:32 UTC | multiple default clock models | 08 May 2020, 05:28:32 UTC |
b52572e | eaton-lab | 08 May 2020, 05:27:11 UTC | multiple default clock models | 08 May 2020, 05:27:11 UTC |
a290517 | eaton-lab | 08 May 2020, 03:45:53 UTC | multiple default clock models | 08 May 2020, 03:45:53 UTC |
7197557 | eaton-lab | 08 May 2020, 03:19:05 UTC | multiple default clock models | 08 May 2020, 03:19:05 UTC |
e44caf6 | eaton-lab | 08 May 2020, 03:18:07 UTC | multiple default clock models | 08 May 2020, 03:18:07 UTC |
19d572f | eaton-lab | 08 May 2020, 03:11:59 UTC | multiple default clock models | 08 May 2020, 03:11:59 UTC |
b2f9ce9 | eaton-lab | 08 May 2020, 02:57:37 UTC | multiple default clock models | 08 May 2020, 02:57:37 UTC |
c71d1ba | eaton-lab | 07 May 2020, 19:37:27 UTC | wex concat name drop fix | 07 May 2020, 19:37:27 UTC |
03f7e13 | eaton-lab | 07 May 2020, 02:25:15 UTC | ts tmpdir renamed bootsdir | 07 May 2020, 02:25:15 UTC |
f50a75f | eaton-lab | 06 May 2020, 22:46:14 UTC | umap learn conda instructions | 06 May 2020, 22:46:14 UTC |
f6182e4 | eaton-lab | 06 May 2020, 22:35:03 UTC | ts: added dryrun method | 06 May 2020, 22:35:03 UTC |
d8a02a2 | eaton-lab | 06 May 2020, 22:30:53 UTC | wex: remove print debug statement | 06 May 2020, 22:30:53 UTC |