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Pathogen-Genomics-Cymru
/
lodestone
Mycobacterial pipeline
GNU Affero General Public License v3.0
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Bcg
#108
WhalleyT
closed
1 week ago
0
Ntmprofiler
#107
WhalleyT
closed
3 weeks ago
0
Empty vcfs
#106
WhalleyT
closed
3 weeks ago
0
If only one VCF is created (or populated) ignore Cortex
#105
WhalleyT
closed
3 weeks ago
0
Bovis miscategorised as MTB
#104
WhalleyT
closed
1 week ago
3
New references
#103
WhalleyT
closed
3 weeks ago
0
config
#102
WhalleyT
closed
4 weeks ago
0
Collate
#101
WhalleyT
closed
4 weeks ago
0
Tbtamr
#100
WhalleyT
closed
4 weeks ago
0
update final report to accept QC sucesses
#99
WhalleyT
closed
1 month ago
0
update tests
#98
WhalleyT
closed
1 month ago
0
tb-profiler collate
#97
WhalleyT
closed
3 weeks ago
0
Recursive decontamination
#96
WhalleyT
closed
1 month ago
0
update config
#95
WhalleyT
closed
1 month ago
0
another change to containers
#94
WhalleyT
closed
1 month ago
0
versions on containers
#93
WhalleyT
closed
1 month ago
0
versions on containers
#92
WhalleyT
closed
1 month ago
0
Recursive decontamination
#91
WhalleyT
closed
1 month ago
0
Flag to download assembly
#90
WhalleyT
opened
1 month ago
0
G1 (species complex) missing in Kraken2
#89
WhalleyT
closed
1 month ago
1
0.98a checklist
#88
WhalleyT
closed
1 month ago
0
FTP issues
#87
WhalleyT
closed
1 month ago
1
Permissive flag on decontamination
#86
WhalleyT
closed
1 month ago
2
Hanging recursion
#85
WhalleyT
closed
1 month ago
0
bring up to speed
#84
WhalleyT
closed
2 months ago
0
Merge pull request #82 from Pathogen-Genomics-Cymru/main
#83
WhalleyT
closed
2 months ago
0
Merge to get up to speed and carry on testing
#82
WhalleyT
closed
2 months ago
0
Species genus report
#81
WhalleyT
closed
2 months ago
0
Stub run test
#80
WhalleyT
closed
2 months ago
0
replace ftp with https in refseq
#79
WhalleyT
closed
2 months ago
0
replace ftp with https in refseq
#78
WhalleyT
closed
2 months ago
0
replace ftp with https in refseq
#77
WhalleyT
closed
2 months ago
0
Thresholding issues
#76
WhalleyT
closed
1 month ago
0
TB-profiler report
#75
WhalleyT
closed
3 weeks ago
3
replace ftp with https in refseq
#74
WhalleyT
closed
2 months ago
0
Recursive decon
#73
WhalleyT
closed
2 months ago
0
Threshold decontamination
#72
WhalleyT
closed
2 months ago
0
https
#71
WhalleyT
closed
2 months ago
0
assembly_summary_refseq.txt :check for updates or go straight to wget file
#70
WhalleyT
closed
2 months ago
2
use https links rather than ftp
#69
WhalleyT
closed
2 months ago
1
Version fix
#68
WhalleyT
closed
2 months ago
0
Config
#67
WhalleyT
closed
2 months ago
0
Missing version for tb-profiler container
#66
WhalleyT
closed
2 months ago
1
Iteratively loop through contaminant removal
#65
WhalleyT
closed
1 month ago
2
Assembly
#64
WhalleyT
closed
3 weeks ago
1
Process:summarise: identify_tophit_and_contaminants2.py KeyError
#63
WhalleyT
closed
2 months ago
2
TB-profiler new issue
#62
MarcNiebel
closed
1 month ago
4
TB-profiler issue v2
#61
MarcNiebel
closed
3 months ago
13
stub runs
#60
WhalleyT
closed
2 months ago
1
Spython
#59
WhalleyT
opened
3 months ago
0
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