Planteome planteome-annotation-data issues

Planteome / planteome-annotation-data

This is a place to discuss issues around the Planteome annotation data and store useful scripts etc.

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issues

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Links to GR Ensembl are not resolving correctly

#38 cooperl09 opened 9 months ago
0
Links out to Legume Information System are not resolving correctly

#37 cooperl09 opened 9 months ago
0
Links to RAP-DB broken

#36 cooperl09 closed 2 days ago
2
Links to Genesys from Cassava germplasm with TO annotations do not resolve, many missing

#35 cooperl09 closed 10 months ago
1
Links to Gramene QTLs and references are broken

#34 cooperl09 closed 10 months ago
1
Prunus persica links are broken

#33 cooperl09 opened 11 months ago
2
683 TAIR genes missing object type

#32 cooperl09 closed 3 months ago
1
Links to Congenie do not resolve

#31 cooperl09 opened 12 months ago
1
Comma-separated synonym fields in GO GAF file

#30 serenalotreck closed 2 years ago
5
Download most recent version of all .assoc files in bulk

#29 serenalotreck closed 2 years ago
2
Systemic issue in GAF file formatting

#28 serenalotreck closed 2 years ago
13
Error in to_germplasm_O.sativa_IRRI3K.assoc file

#27 cooperl09 opened 3 years ago
0
Links to germplasm from GRIMS do not resolve

#26 cooperl09 closed 7 months ago
1
Links to the germplasm sources from to_germplasm_O.sativa_IRRI3K.assoc do not resolve

#25 cooperl09 opened 3 years ago
0
File "go_gene_Oryza_Gramene.assoc" also contains Sorghum and Zea mays genes

#24 cooperl09 opened 3 years ago
0
Links fail to resolve from Oryza sativa Japonica Group annotations

#23 cooperl09 opened 3 years ago
0
Links fail to resolve from Populus trichocarpa annotations

#22 cooperl09 opened 3 years ago
0
Links fail to resolve from Oryza sativa Indica Group annotations

#21 cooperl09 opened 3 years ago
0
Links to TAIR PPPP genes are the wrong format

#20 cooperl09 opened 4 years ago
0
Links to Oyza germplasm at GRIMS now go to blank page at Genesys

#19 cooperl09 opened 4 years ago
0
New gene atlas for maize is available

#18 cooperl09 opened 5 years ago
0
Ensemblplants xrefs no longer work

#17 elserj opened 5 years ago
0
Physcomitrella Annotations from Cosmoss

#16 cooperl09 opened 5 years ago
0
sorghum QTL Mappings

#15 cooperl09 closed 5 years ago
2
Issues with sorghum_GRIN.gaf file

#14 cooperl09 closed 5 years ago
1
Missing species name- Zea diploperennis

#13 cooperl09 closed 6 years ago
1
Links to IRIS database not working in germplasm annotations

#12 cooperl09 closed 6 years ago
2
lentil germplasm traits mapping

#11 cooperl09 closed 6 years ago
2
4 Reference xref sources don't have URLs

#10 elserj opened 6 years ago
3
po_anatomy_germplasm_Zea_MaizeGDB.assoc abusing with/from field?

#9 elserj opened 6 years ago
0
Triticum monococcum go annotation files- need to clarify the Taxon ids

#8 cooperl09 opened 7 years ago
0
rename files for consistency: go_iprscan_Mimulus_guttatus.assoc and go_ortholog_gene_Mimulus_guttatus_planteome.assoc?

#7 cooperl09 closed 5 years ago
1
Formats of the association files in our database- not all are GAF 2.0

#6 cooperl09 closed 6 years ago
2
Transcriptomics of cereal-Fusarium graminearum interactions

#5 cooperl09 opened 7 years ago
2
Phenotypic differences in Physcomitrella patens ecotypes- expression profiling and comparative developmental data for several stages of sporophyte development

#4 cooperl09 opened 7 years ago
0
Empty Ref fields in go-associations/go_gene_Oryza_Gramene.assoc

#3 cooperl09 opened 7 years ago
0
Obsolete GO terms in annotation files

#2 cooperl09 opened 7 years ago
5
MaizeGDB GO annotations for Jan 2017 Release

#1 austinmeier closed 7 years ago
9