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EBI-Metagenomics
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genomes-catalogue-pipeline
MGnify genome analysis pipeline
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Update README.md
#99
mberacochea
closed
1 month ago
0
Bump requests from 2.31.0 to 2.32.0
#98
dependabot[bot]
opened
1 month ago
0
Dev
#97
tgurbich
closed
2 months ago
0
Conditional usage of IQTree or FastTree
#96
mberacochea
closed
2 months ago
0
Checkm2
#95
tgurbich
closed
2 months ago
0
Fix/modify deduplicate script
#94
KateSakharova
closed
3 months ago
0
V2.2.2 prep
#93
tgurbich
closed
2 months ago
0
Update fetch script
#92
tgurbich
closed
3 months ago
0
Minor adjustments to run the pipeline in Codon + Slurm
#91
mberacochea
closed
3 months ago
0
Changes to how eggnog is parsed; removed empty values from annotated gff
#90
tgurbich
closed
3 months ago
0
Bump black from 23.1.0 to 24.3.0
#89
dependabot[bot]
closed
3 months ago
0
Update infernal container
#88
tgurbich
closed
4 months ago
0
Update README.md - eggnog db version
#87
mberacochea
closed
5 months ago
2
Add the --cpu flag for Sanntis
#86
mberacochea
closed
6 months ago
0
SanntiS floods CPUs
#85
lam-c
closed
2 months ago
1
KRAKEN2_BUILD cp *.txt permission error
#84
akques
opened
6 months ago
2
Interproscan error
#83
amardeepranu
opened
6 months ago
3
Prokka error
#82
amardeepranu
opened
6 months ago
3
Missing EBI profile
#81
amardeepranu
closed
6 months ago
1
Completeness and contamination missing from fetch_ncbi.py
#80
amardeepranu
opened
7 months ago
3
Can't fetch ena data with biome list
#79
amardeepranu
opened
7 months ago
1
Merge dev to a new release
#78
mberacochea
closed
7 months ago
0
Container image miss command `ps`
#77
lam-c
opened
7 months ago
10
Fetch singularity images for offline use
#76
lam-c
closed
6 months ago
3
Update README.md: fix dead links to download files
#75
KateSakharova
closed
7 months ago
1
Bug fix/organising script
#74
tgurbich
closed
7 months ago
0
dead links
#73
QingDAI0225
closed
7 months ago
1
Dev
#72
tgurbich
closed
7 months ago
0
Xlarge release staging
#71
tgurbich
closed
7 months ago
0
Add AMRFinderPlus referende DB download link in the README file.
#70
mberacochea
closed
7 months ago
0
No valid AMRFinder database is found
#69
akques
closed
7 months ago
1
Dev
#68
tgurbich
closed
7 months ago
0
Feature/xlarge readme
#67
tgurbich
closed
8 months ago
0
Merge DEV
#66
mberacochea
closed
8 months ago
0
Increate memory and cpus in some tools for largue catalogues.
#65
mberacochea
closed
8 months ago
0
Support for largue catalogues, >100K MAGs, where dRep requires too much memory
#64
mberacochea
closed
8 months ago
0
dereplication for large catalogues
#63
mberacochea
closed
8 months ago
0
Uniprot
#62
tgurbich
opened
9 months ago
0
Updating pre-existing catalog and functional profiling
#61
sarpiens
closed
7 months ago
3
Dev
#60
tgurbich
closed
10 months ago
0
Removed splitting scaffolds into contigs
#59
tgurbich
closed
10 months ago
0
Feature/rna central
#58
tgurbich
closed
11 months ago
1
Xlarge config
#57
tgurbich
closed
1 year ago
0
Prevent generate_extra_weight_table.py from bailing out if a genome is missing.
#56
mberacochea
closed
1 year ago
0
Replaced forced exit with a warning if a genome is in the provided ge…
#55
tgurbich
closed
1 year ago
0
Added gzipping of gene catalogue
#54
tgurbich
closed
1 year ago
0
Adjusted EBI - LSF configuration.
#53
mberacochea
closed
1 year ago
0
Metadata fetching scripts fixes and improvements
#52
mberacochea
closed
1 year ago
0
Bugfix/ena metadata
#51
tgurbich
closed
1 year ago
1
Bug fixes
#50
mberacochea
closed
1 year ago
0
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