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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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34 Open 59 Closed
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Issues list

Final annotation protein sequence length includes exceedingly short proteins bug Something isn't working
#125 opened Dec 8, 2024 by rosscrowhurst 0.6.0
1
@GallVp
9
Pipeline report fails with large heatmaps bug Something isn't working
#124 opened Dec 5, 2024 by GallVp 0.6.0
1
@GallVp
1
Pipeline report module gets killed due to Out of Memory on SLURM bug Something isn't working
#123 opened Dec 5, 2024 by GallVp 0.6.0
1
@GallVp
Pipeline fails at TSEBRA step if non-coding transcripts are present in the Liftoff reference GFF bug Something isn't working
#121 opened Dec 4, 2024 by GallVp 0.6.0
1
@GallVp
Pipeline fails at TSEBRA step if snoRNA features are present in the Liftoff reference GFF bug Something isn't working
#120 opened Dec 4, 2024 by GallVp 0.6.0
1
@GallVp
1
Save CDNA and CDS and files along with proteins file enhancement New feature or request
#118 opened Dec 4, 2024 by GallVp 0.6.0
1
@liamlelievre
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
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 awaiting-feedback Awaiting more information from the user discussion needed Further discussion is needed enhancement New feature or request
#80 opened Oct 29, 2024 by CeciliaDeng
2
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 0.5.1
@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
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