issues
search
EBI-Metagenomics
/
genomes-catalogue-pipeline
MGnify genome analysis pipeline
Other
97
stars
21
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Removed splitting scaffolds into contigs
#59
tgurbich
closed
1 year ago
0
Feature/rna central
#58
tgurbich
closed
1 year 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
Don't run IQTree if the GTDBtk MSA contain less than 2 seqs
#49
mberacochea
closed
1 year ago
0
Added fixes to account for missing data in ENA
#48
tgurbich
closed
1 year ago
0
Dev
#47
mberacochea
closed
1 year ago
0
Feature/extra weight consider isolate info
#46
mberacochea
closed
1 year ago
0
Fixed path to modules
#45
tgurbich
closed
1 year ago
3
Added a file organiser script
#44
tgurbich
closed
1 year ago
0
v2.1.0
#43
mberacochea
closed
1 year ago
0
V2.1.0
#42
mberacochea
closed
1 year ago
0
Change base image for GTDB-tk 2.3.0
#41
mberacochea
closed
1 year ago
0
Nextflow migration PR
#40
mberacochea
closed
1 year ago
0
Feature/repo cleaning emg 4395
#39
mberacochea
closed
1 year ago
1
Improve metadata script
#38
KateSakharova
closed
1 year ago
1
Mash file for singletons
#37
KateSakharova
closed
1 year ago
1
Feature/add qs50 filtering
#36
KateSakharova
closed
1 year ago
0
add missing sub-wf req
#35
mr-c
closed
1 year ago
1
Migration to nextflow [WIP]
#34
mberacochea
closed
1 year ago
2
Question about lowercase/uppercase genomes
#33
franciscozorrilla
closed
1 year ago
2
Duplicated genomes in the UHGG v2
#32
fplazaonate
closed
1 year ago
3
Feature/re organization
#31
mberacochea
closed
1 year ago
0
Fix chosing file_pattern tool and fix annot_gff script
#30
KateSakharova
closed
1 year ago
1
Kraken step
#29
tgurbich
closed
1 year ago
0
Feature/virify gff generation
#28
mberacochea
closed
1 year ago
1
Add emerald
#27
tgurbich
closed
1 year ago
0
GTDB command fix
#26
tgurbich
closed
1 year ago
0
Changed link format to match changes in ENA
#25
tgurbich
closed
1 year ago
0
Upgraded gtdb-tk version and db
#24
tgurbich
closed
1 year ago
0
Change prokka output
#23
tgurbich
closed
1 year ago
0
Pinned the tool versions on the containers.
#22
mberacochea
closed
1 year ago
1
GTDB taxonomy dump container and script
#21
mberacochea
closed
1 year ago
0
Panaroo fna rename with move.cwl doesn't work, cp.cwl instead.
#20
mberacochea
closed
1 year ago
0
Execution bash script
#19
mberacochea
closed
1 year ago
1
Feature/execution script steps generation
#18
mberacochea
closed
1 year ago
0
Updated pipeline
#17
KateSakharova
closed
1 year ago
1
Contigs naming is not consistent between genomes
#16
fplazaonate
opened
2 years ago
1
Taxonomic annotation is not consistent in metadata file
#15
fplazaonate
closed
2 years ago
2
MGnify merges distinct species in the same cluster
#14
fplazaonate
closed
2 years ago
4
Optimise post processing
#13
KateSakharova
closed
2 years ago
0
Post processing (metadata + json)
#12
KateSakharova
closed
2 years ago
0
Develop
#11
KateSakharova
closed
2 years ago
0
Post processing
#10
KateSakharova
closed
2 years ago
1
Previous
Next