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Issues: Plant-Food-Research-Open/genepal

[Project] Enhanced debug profile
#96 opened Nov 14, 2024 by GallVp
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30 Open 65 Closed
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Issues list

Should we add evigene at the end of the pipeline? enhancement New feature or request
#133 opened Jan 20, 2025 by GallVp
Filter a gtf file to keep only regions that are located on a chromosome represented in a given fasta file enhancement New feature or request
#116 opened Dec 1, 2024 by GallVp
Update AGAT modules enhancement New feature or request
#107 opened Nov 20, 2024 by GallVp
AnnotationDB creation enhancement New feature or request
#105 opened Nov 19, 2024 by jasonshiller
2
Investigate E2P2 enhancement New feature or request
#104 opened Nov 19, 2024 by GallVp
Report number of genes/features included/excluded at each step enhancement New feature or request
#97 opened Nov 14, 2024 by GallVp
[Project] Enhanced debug profile
#96 opened Nov 14, 2024 by GallVp
2 tasks
Keep filtered genes enhancement New feature or request
#95 opened Nov 14, 2024 by jasonshiller
3
What happens when the same TE library is supplied for multiple assemblies? enhancement New feature or request
#94 opened Nov 14, 2024 by GallVp
Allow all in the rnaseq sheet enhancement New feature or request
#93 opened Nov 14, 2024 by GallVp
Investigate/include GeMoMa? enhancement New feature or request
#92 opened Nov 13, 2024 by CeciliaDeng
1
Liftoff allows single base introns bug Something isn't working
#89 opened Nov 7, 2024 by GallVp
@GallVp
4
Investigate HiTE enhancement New feature or request
#86 opened Nov 6, 2024 by GallVp
2
Add get_homologues-est enhancement New feature or request
#85 opened Nov 3, 2024 by GallVp
1
Misleading errors when the headers are missing in input CSVs bug Something isn't working
#84 opened Oct 30, 2024 by GallVp
@rosscrowhurst
Add Entrez mapping discussion needed Further discussion is needed enhancement New feature or request
#80 opened Oct 29, 2024 by CeciliaDeng
4
annotate transcriptome assembly discussion needed Further discussion is needed enhancement New feature or request
#79 opened Oct 29, 2024 by CeciliaDeng
1
Failure at tsebra step bug Something isn't working
#77 opened Oct 28, 2024 by GallVp
@GallVp
3
Lifton vs Liftoff discussion needed Further discussion is needed enhancement New feature or request
#76 opened Oct 28, 2024 by annabel-NZ
1
Investigate wurmlab/genevalidator enhancement New feature or request
#69 opened Oct 16, 2024 by GallVp
[UPDATE] GITHUB/PYTHON/CPYTHON -> 3.12.4 enhancement New feature or request tool update A tool needs an update
#52 opened Jul 24, 2024 by GallVp
[UPDATE] GITHUB/OUSHUJUN/EDTA -> 2.2.0 enhancement New feature or request tool update A tool needs an update
#50 opened Jul 24, 2024 by GallVp
Add --sensitive and --conservative flags discussion needed Further discussion is needed enhancement New feature or request
#45 opened Jul 1, 2024 by GallVp
3
The pipeline should continue when no repeat is detected by repeatmodeler/edta enhancement New feature or request
#39 opened Jun 18, 2024 by GallVp
1
Pull descriptions from DB_XREF of eggnog especially for NCBI benchmarking Need to benchmark the proposal enhancement New feature or request prototyping A tool or a sub-workflow needs prototyping
#26 opened Apr 30, 2024 by GallVp
ProTip! no:milestone will show everything without a milestone.