issues
search
BCCDC-PHL
/
tbprofiler-nf
Nextflow Wrapper for TBProfiler
4
stars
2
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Pretty-print tbprofiler_full_report.json file when writing file
#39
dfornika
opened
6 days ago
0
update to incorporate pathogen-profiler fix
#38
taranewman
closed
20 hours ago
0
Issue with Pathogen Profiler combine_vcf_variants.py script
#37
taranewman
closed
20 hours ago
0
Update tb profiler v6.2.0
#36
taranewman
closed
2 months ago
1
Update tbprofiler version to v6.2.0
#35
dfornika
closed
2 months ago
0
Add github actions testing pipeline
#34
dfornika
closed
4 months ago
1
Remove versioned_outdir param
#33
dfornika
closed
4 months ago
0
Collect tabular outputs
#32
dfornika
closed
4 months ago
0
Remove 'versioned_outdir' param
#31
dfornika
closed
4 months ago
0
Add GitHub Actions Testing
#30
dfornika
closed
4 months ago
0
Handle ZeroDivision error exception
#29
taranewman
closed
4 months ago
0
ZeroDivision Error handling
#28
taranewman
closed
4 months ago
1
Update provenance format
#27
taranewman
closed
4 months ago
1
Check samples with a low (< 1%) snpit Percentage
#26
dfornika
closed
4 months ago
0
Coverage plotting script fails on negative controls
#25
dfornika
closed
4 months ago
0
Switch strategy for checking snpit results
#24
dfornika
closed
4 months ago
0
Correct snpit result-checking script
#23
dfornika
closed
4 months ago
0
snpit occasionally reports H37Rv-like samples as M. canetti or M. pinnipedii
#22
dfornika
closed
4 months ago
0
Check snpit results against tbprofiler and correct when necessary
#21
dfornika
closed
4 months ago
0
Update provenance format
#20
dfornika
closed
4 months ago
0
Add option to collect tabular outputs for all samples into top-level files
#19
dfornika
closed
4 months ago
0
snpit reports species `N/A` when genotype closely matches H37Rv
#18
dfornika
closed
4 months ago
0
fix division by 0 when calculating qc metrics
#17
taranewman
closed
5 months ago
0
Add depth qc
#16
taranewman
closed
9 months ago
0
calculating resistance gene coverage depth fails for negative control
#15
taranewman
closed
5 months ago
0
Add resistance gene depth qc
#14
taranewman
closed
9 months ago
0
Add script and process for generating low-coverage bed file
#13
dfornika
closed
9 months ago
0
Coverage summary
#12
dfornika
closed
5 months ago
4
parse multiple resistance mutations
#11
taranewman
closed
1 year ago
0
Additional mutations from full mutation report are being excluded from _tbprofiler_resistance.csv file
#10
taranewman
closed
1 year ago
0
Add snpit
#9
dfornika
closed
1 year ago
0
Add snpit for subspecies calling
#8
dfornika
closed
1 year ago
0
added provenance
#7
sherrie9
closed
1 year ago
0
add provenance
#6
sherrie9
closed
1 year ago
0
Remove commas before coverting to float in qualimap report
#5
dfornika
closed
1 year ago
0
error when parsing qualimap result
#4
sherrie9
closed
1 year ago
0
Update tbprofiler to v4.3.0
#3
dfornika
closed
1 year ago
0
tbprofiler error
#2
sherrie9
closed
1 year ago
1
Transpose resistance report
#1
dfornika
opened
2 years ago
1