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CDCgov
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NCHHSTP-DTBE-Varpipe-WGS
This repository contains an analysis pipeline developed to characterize WGS output
Apache License 2.0
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Pipeline failing/producing empty outputs
#18
RuanSpies21
opened
3 months ago
0
Parallel processing of samples in Varpipe_wgs
#17
DrB-S
opened
9 months ago
0
Only count paired-end overlaps once for depth
#16
schorlton
opened
9 months ago
0
what is the QC standards in the pipeline?
#15
ybdong919
opened
1 year ago
0
QC log : failed QC checks
#14
ybdong919
opened
1 year ago
0
How to run the singularity image of the pipeline in a script?
#13
ybdong919
opened
1 year ago
0
runVarpipeline.sh isn't located in /varpipe_wgs/data in ghcr.io/cdcgov/varpipe_wgs_with_refs:latest
#12
erinyoung
opened
1 year ago
1
Docker image is not compatible with gitpod
#11
erinyoung
opened
1 year ago
0
Retain Input Fastqs
#10
whottel
closed
1 year ago
2
Running Pipeline after Local install
#9
whottel
opened
1 year ago
0
Singularity Installation Issues
#8
whottel
closed
1 year ago
2
python2 or python 3?
#7
ybdong919
closed
1 year ago
1
Process `map_reads (1)` terminated with an error exit status (127) Command error: .command.sh: line 2: clockwork: command not found
#6
ybdong919
opened
1 year ago
0
Debug the script "clockwork" in /tools/clockwork-0.11.3/
#5
ybdong919
closed
1 year ago
1
Optional Debug the script "Varpipeline.py" in /tools/
#4
ybdong919
closed
1 year ago
1
bug in the script "get_gatk.sh"
#3
ybdong919
closed
1 year ago
1
Process `map_reads (1)` terminated with an error exit status (1)
#2
ybdong919
opened
1 year ago
1
AttributeError: 'module' object has no attribute 'FullLoader'
#1
ybdong919
closed
1 year ago
1