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elserj [Fri, 30 Dec 2011 22:26:47 +0000 (22:26 +0000)]
Replace GenBank in column 1 with AgBase
svn path=/; revision=281
elserj [Thu, 29 Dec 2011 22:27:09 +0000 (22:27 +0000)]
Fix column 1 (db) names to point to correct names so that NameMunger.pm can give the appropriate links
svn path=/; revision=280
cooperl [Thu, 29 Dec 2011 21:11:14 +0000 (21:11 +0000)]
Fixed pubmed refs that were lacking the colon.
svn path=/; revision=279
cooperl [Thu, 29 Dec 2011 21:10:55 +0000 (21:10 +0000)]
Fixed pubmed refs that were lacking the colon.
svn path=/; revision=278
tair [Tue, 27 Dec 2011 07:20:59 +0000 (07:20 +0000)]
TAIR weekly commit
svn path=/; revision=277
tair [Tue, 27 Dec 2011 07:18:50 +0000 (07:18 +0000)]
TAIR weekly commit
svn path=/; revision=276
cooperl [Wed, 21 Dec 2011 21:19:22 +0000 (21:19 +0000)]
Removed duplicate lines and 12 lines that were missing a gene name (DB
Object ID) in column 2. Now has 224,641 lines.
svn path=/; revision=275
tair [Tue, 20 Dec 2011 07:20:53 +0000 (07:20 +0000)]
TAIR weekly commit
svn path=/; revision=274
tair [Tue, 20 Dec 2011 07:18:54 +0000 (07:18 +0000)]
TAIR weekly commit
svn path=/; revision=273
elserj [Fri, 16 Dec 2011 23:17:55 +0000 (23:17 +0000)]
Run dos2unix on files to get rid of extra Windows characters
svn path=/; revision=272
elserj [Fri, 16 Dec 2011 23:08:08 +0000 (23:08 +0000)]
Remove empty lines as it was making the AmiGO loading script give a bunch of errors
svn path=/; revision=271
cooperl [Thu, 15 Dec 2011 22:43:34 +0000 (22:43 +0000)]
Removed the old files that have been renamed.
svn path=/; revision=270
hwang [Thu, 15 Dec 2011 20:37:07 +0000 (20:37 +0000)]
PO:
0009790 replaced by PO:
0007631
svn path=/; revision=269
hwang [Thu, 15 Dec 2011 20:31:12 +0000 (20:31 +0000)]
PO:
0025034 (leaf) replaced by PO: PO:
0009025 (vascular leaf)
svn path=/; revision=268
lang [Thu, 15 Dec 2011 15:45:19 +0000 (15:45 +0000)]
now including the 7 additional conditions
svn path=/; revision=267
hwang [Wed, 14 Dec 2011 19:41:38 +0000 (19:41 +0000)]
file renamed
svn path=/; revision=266
hwang [Wed, 14 Dec 2011 19:34:59 +0000 (19:34 +0000)]
old file name replaced by a new file name
svn path=/; revision=265
cooperl [Wed, 14 Dec 2011 19:03:41 +0000 (19:03 +0000)]
Moved the older gaf2 association files to the "old" folder.
svn path=/; revision=264
hwang [Wed, 14 Dec 2011 18:58:39 +0000 (18:58 +0000)]
file cotton_PO_annotation removed
svn path=/; revision=263
hwang [Wed, 14 Dec 2011 16:16:07 +0000 (16:16 +0000)]
two new files added to replace the old version
svn path=/; revision=262
tair [Tue, 13 Dec 2011 07:21:26 +0000 (07:21 +0000)]
TAIR weekly commit
svn path=/; revision=261
tair [Tue, 13 Dec 2011 07:19:25 +0000 (07:19 +0000)]
TAIR weekly commit
svn path=/; revision=260
tair [Thu, 8 Dec 2011 00:23:51 +0000 (00:23 +0000)]
TAIR weekly commit
svn path=/; revision=259
tair [Thu, 8 Dec 2011 00:21:42 +0000 (00:21 +0000)]
TAIR weekly commit
svn path=/; revision=258
lang [Tue, 6 Dec 2011 15:15:27 +0000 (15:15 +0000)]
adding physco assoc file
svn path=/; revision=257
lang [Tue, 6 Dec 2011 15:12:29 +0000 (15:12 +0000)]
removing symlink
svn path=/; revision=256
lang [Tue, 6 Dec 2011 15:07:08 +0000 (15:07 +0000)]
moving to test
svn path=/; revision=255
lang [Tue, 6 Dec 2011 09:11:27 +0000 (09:11 +0000)]
Initial assoc file for Physcomitrella. Does not contain all experiments yet. Contains redundant entries. wc -l 238146 --> sort -u | wc -l 190408
svn path=/; revision=254
tair [Tue, 6 Dec 2011 07:20:54 +0000 (07:20 +0000)]
TAIR weekly commit
svn path=/; revision=253
tair [Tue, 6 Dec 2011 07:19:00 +0000 (07:19 +0000)]
TAIR weekly commit
svn path=/; revision=252
cooperl [Wed, 30 Nov 2011 21:32:54 +0000 (21:32 +0000)]
Adding cotton annotation file from AgBase
svn path=/; revision=251
tair [Tue, 29 Nov 2011 07:23:37 +0000 (07:23 +0000)]
TAIR weekly commit
svn path=/; revision=250
tair [Tue, 29 Nov 2011 07:21:20 +0000 (07:21 +0000)]
TAIR weekly commit
svn path=/; revision=249
tair [Tue, 22 Nov 2011 07:21:48 +0000 (07:21 +0000)]
TAIR weekly commit
svn path=/; revision=248
tair [Tue, 22 Nov 2011 07:19:32 +0000 (07:19 +0000)]
TAIR weekly commit
svn path=/; revision=247
cooperl [Wed, 16 Nov 2011 00:05:37 +0000 (00:05 +0000)]
Adding new grape association files from CRIBI (Nicola Vitulo)
svn path=/; revision=246
cooperl [Wed, 16 Nov 2011 00:02:42 +0000 (00:02 +0000)]
Removing older grape test association files.
svn path=/; revision=245
tair [Tue, 15 Nov 2011 07:24:38 +0000 (07:24 +0000)]
TAIR weekly commit
svn path=/; revision=244
tair [Tue, 15 Nov 2011 07:21:22 +0000 (07:21 +0000)]
TAIR weekly commit
svn path=/; revision=243
cooperl [Sun, 13 Nov 2011 00:53:01 +0000 (00:53 +0000)]
Added a test_cotton folder for temp Agbase association files
svn path=/; revision=242
cooperl [Sat, 12 Nov 2011 23:38:43 +0000 (23:38 +0000)]
trying commit again, as it was interupted
svn path=/; revision=241
cooperl [Sat, 12 Nov 2011 23:22:54 +0000 (23:22 +0000)]
removing files moved to folder 'old'
svn path=/; revision=240
cooperl [Sat, 12 Nov 2011 23:10:54 +0000 (23:10 +0000)]
moved PO_early_gametophores.txt to old
svn path=/; revision=239
cooperl [Sat, 12 Nov 2011 22:58:22 +0000 (22:58 +0000)]
moved the older files to folder 'old'
svn path=/; revision=238
cooperl [Sat, 12 Nov 2011 22:38:55 +0000 (22:38 +0000)]
Added missing "PO_early_gametophores.txt" file to svn
svn path=/; revision=237
cooperl [Sat, 12 Nov 2011 22:34:27 +0000 (22:34 +0000)]
created the folder'old' to move older assoc files to.
svn path=/; revision=236
cooperl [Wed, 9 Nov 2011 00:40:13 +0000 (00:40 +0000)]
Removed the files corresponding to the ABA treated samples as per
request from SR.
svn path=/; revision=235
tair [Tue, 8 Nov 2011 07:21:07 +0000 (07:21 +0000)]
TAIR weekly commit
svn path=/; revision=234
tair [Tue, 8 Nov 2011 07:19:31 +0000 (07:19 +0000)]
TAIR weekly commit
svn path=/; revision=233
tair [Tue, 1 Nov 2011 06:22:06 +0000 (06:22 +0000)]
TAIR weekly commit
svn path=/; revision=232
tair [Tue, 1 Nov 2011 06:19:53 +0000 (06:19 +0000)]
TAIR weekly commit
svn path=/; revision=231
tair [Tue, 25 Oct 2011 06:21:51 +0000 (06:21 +0000)]
TAIR weekly commit
svn path=/; revision=230
tair [Tue, 25 Oct 2011 06:19:42 +0000 (06:19 +0000)]
TAIR weekly commit
svn path=/; revision=229
tair [Tue, 18 Oct 2011 06:22:12 +0000 (06:22 +0000)]
TAIR weekly commit
svn path=/; revision=228
tair [Tue, 18 Oct 2011 06:19:46 +0000 (06:19 +0000)]
TAIR weekly commit
svn path=/; revision=227
elserj [Thu, 13 Oct 2011 17:15:34 +0000 (17:15 +0000)]
Includes mapped classical maize gene names provided by CoGe (mapped by JP)
svn path=/; revision=226
cooperl [Wed, 12 Oct 2011 22:13:40 +0000 (22:13 +0000)]
Removing two of the MaizeGDB association files that are no longer being maintained.
svn path=/; revision=225
tair [Tue, 11 Oct 2011 06:22:39 +0000 (06:22 +0000)]
TAIR weekly commit
svn path=/; revision=224
tair [Tue, 11 Oct 2011 06:20:19 +0000 (06:20 +0000)]
TAIR weekly commit
svn path=/; revision=223
zeamary [Thu, 6 Oct 2011 21:10:37 +0000 (21:10 +0000)]
Removed column 16 vascular leaf for transition, adult and juvenile leaves; removed extra assoc rows that were required for this
svn path=/; revision=222
zeamary [Thu, 6 Oct 2011 21:05:59 +0000 (21:05 +0000)]
vascular leaf removed from column 16 for juvenile, adult and transition leaf; extra rows also removed; date updated
svn path=/; revision=221
zeamary [Thu, 6 Oct 2011 21:01:44 +0000 (21:01 +0000)]
To be replaced with corrected file
svn path=/; revision=220
zeamary [Thu, 6 Oct 2011 20:58:52 +0000 (20:58 +0000)]
removes column 16 vascular leaf for adult, juvenile and transition leaf
removes some duplicate row
removes extra annotations to vascular leaf based on column 16 for above.
svn path=/; revision=219
zeamary [Thu, 6 Oct 2011 20:51:13 +0000 (20:51 +0000)]
To be replaced with new file
svn path=/; revision=218
cooperl [Thu, 6 Oct 2011 18:47:45 +0000 (18:47 +0000)]
Adding physcomitrella association files to test_physco
svn path=/; revision=217
cooperl [Thu, 6 Oct 2011 00:05:22 +0000 (00:05 +0000)]
adding files from CRIBI to test_grape
svn path=/; revision=216
zeamary [Wed, 5 Oct 2011 15:39:58 +0000 (15:39 +0000)]
Gene Models from Kaeppler data updated for PUBMED ID and early fruit development for 2-10 days, considered dilatory in B73 kernel development and likely less than 10% size.
svn path=/; revision=215
zeamary [Wed, 5 Oct 2011 15:21:05 +0000 (15:21 +0000)]
Replaces PMID value with correct one. Annotation to current terms for pollen, anther, style. Annotation for extra, less granular terms, to accommodate PO requirements: vascular leaf, anther, tassel floret, ear floret.
svn path=/; revision=214
zeamary [Wed, 5 Oct 2011 15:13:47 +0000 (15:13 +0000)]
Adds new stocks; uses current PO terms for anther, etc. Adds extra associations for vascular leaf, anther, tassel floret, ear floret as now required.
svn path=/; revision=213
zeamary [Wed, 5 Oct 2011 15:11:11 +0000 (15:11 +0000)]
Adds 200 new genes, adds vascular leaf for all parts or types of leaf (juvenile, transition, adult), uses PO accessions for generic pollen, anther, style adding extra annotations for the parts in Zea.
svn path=/; revision=212
tair [Tue, 4 Oct 2011 06:25:16 +0000 (06:25 +0000)]
TAIR weekly commit
svn path=/; revision=211
tair [Tue, 4 Oct 2011 06:23:21 +0000 (06:23 +0000)]
TAIR weekly commit
svn path=/; revision=210
cooperl [Tue, 27 Sep 2011 23:10:18 +0000 (23:10 +0000)]
Adding the grape association files from CRIBI (Nicola Vitulo)
svn path=/; revision=209
tair [Tue, 27 Sep 2011 06:22:28 +0000 (06:22 +0000)]
TAIR weekly commit
svn path=/; revision=208
tair [Tue, 27 Sep 2011 06:20:08 +0000 (06:20 +0000)]
TAIR weekly commit
svn path=/; revision=207
tair [Tue, 20 Sep 2011 06:22:30 +0000 (06:22 +0000)]
TAIR weekly commit
svn path=/; revision=206
tair [Tue, 20 Sep 2011 06:20:36 +0000 (06:20 +0000)]
TAIR weekly commit
svn path=/; revision=205
zeamary [Mon, 19 Sep 2011 22:18:02 +0000 (22:18 +0000)]
This file removed and is encompassed in the po_anatomy_genemodel_zea_MaizeGDB.assoc file.
svn path=/; revision=204
zeamary [Mon, 19 Sep 2011 22:11:27 +0000 (22:11 +0000)]
This updated file removes white space, replaces MaizeGDBID with MaizeGDB in Reference pipe, removes some rows with null values for name.
svn path=/; revision=203
zeamary [Mon, 19 Sep 2011 21:55:43 +0000 (21:55 +0000)]
To be replaced with file corrected for MaizeGDBID, and some rows with null values of gene model names.
svn path=/; revision=202
zeamary [Mon, 19 Sep 2011 21:14:15 +0000 (21:14 +0000)]
Kaeppler Gene Atlas Temporal associations
svn path=/; revision=201
pankaj [Fri, 16 Sep 2011 18:48:51 +0000 (18:48 +0000)]
replaced ASPECT column value 'S' with 'A' to be consistent
svn path=/; revision=200
zeamary [Thu, 15 Sep 2011 22:48:21 +0000 (22:48 +0000)]
Extra copy slipped in by accident.
svn path=/; revision=199
zeamary [Thu, 15 Sep 2011 22:40:30 +0000 (22:40 +0000)]
This concatenates previous file for silks only with all Kaeppler Gene Atlas annotations. I pulled the older files out and just did an upload. The SVN was unhappy with the amount of memory allocated on my side it seems.
svn path=/; revision=198
zeamary [Thu, 15 Sep 2011 22:28:10 +0000 (22:28 +0000)]
Removing small file concatenated to new one. Not enough memory to do versioning - or so it claims.
svn path=/; revision=197
zeamary [Thu, 15 Sep 2011 22:17:10 +0000 (22:17 +0000)]
Adding concatenated previous file and new.
svn path=/; revision=196
zeamary [Thu, 15 Sep 2011 20:56:32 +0000 (20:56 +0000)]
Change file name
svn path=/; revision=195
tair [Tue, 13 Sep 2011 06:22:37 +0000 (06:22 +0000)]
TAIR weekly commit
svn path=/; revision=194
tair [Tue, 13 Sep 2011 06:20:12 +0000 (06:20 +0000)]
TAIR weekly commit
svn path=/; revision=193
tair [Tue, 6 Sep 2011 06:24:44 +0000 (06:24 +0000)]
TAIR weekly commit
svn path=/; revision=192
tair [Tue, 6 Sep 2011 06:21:32 +0000 (06:21 +0000)]
TAIR weekly commit
svn path=/; revision=191
tair [Tue, 30 Aug 2011 06:25:45 +0000 (06:25 +0000)]
TAIR weekly commit
svn path=/; revision=190
tair [Tue, 30 Aug 2011 06:22:29 +0000 (06:22 +0000)]
TAIR weekly commit
svn path=/; revision=189
cooperl [Thu, 25 Aug 2011 22:33:17 +0000 (22:33 +0000)]
fixed the columns in Maize association file
svn path=/; revision=188
pankaj [Wed, 24 Aug 2011 18:41:00 +0000 (18:41 +0000)]
fixed 'S' in caps for aspect.
svn path=/; revision=187
pankaj [Wed, 24 Aug 2011 18:39:36 +0000 (18:39 +0000)]
Includes root and fruit specific mRNA expression data and the annotated growth stages using PO (data published in PMID:
21186353 (genome paper)).
svn path=/; revision=186
pankaj [Tue, 23 Aug 2011 19:20:43 +0000 (19:20 +0000)]
Includes root and fruit specific mRNA expression data published in PMID:
21186353 (genome paper).
svn path=/; revision=185
tair [Tue, 23 Aug 2011 06:22:40 +0000 (06:22 +0000)]
TAIR weekly commit
svn path=/; revision=184
tair [Tue, 23 Aug 2011 06:20:23 +0000 (06:20 +0000)]
TAIR weekly commit
svn path=/; revision=183
tair [Tue, 16 Aug 2011 06:22:24 +0000 (06:22 +0000)]
TAIR weekly commit
svn path=/; revision=182
projects / associations / .git / log