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lskatz
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SneakerNet
:feet: QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run
Apache License 2.0
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colorid dependency
#71
lskatz
opened
2 months ago
0
Uuencode
#70
lskatz
closed
2 months ago
0
uuencode dependency
#69
lskatz
closed
2 months ago
1
Fix sendmail bug with too large of an attachment; fix other unit tests that failed locally
#68
lskatz
closed
4 months ago
0
Multiqc
#67
lskatz
closed
4 months ago
3
Genotype
#66
lskatz
closed
6 months ago
0
Troubleshooting workflow
#65
lskatz
opened
1 year ago
0
perldoc
#64
lskatz
closed
1 year ago
1
Documentation for repo structure
#63
lskatz
closed
1 year ago
1
Update README.md
#62
ShrivatsaHegde
closed
1 year ago
0
Rsync nocheck
#61
lskatz
closed
1 year ago
0
add badge & short section on JOSS publication
#60
kapsakcj
closed
3 years ago
1
Fix assembly
#59
lskatz
closed
3 years ago
0
transferFilesToRemoteComputers.pl bug
#58
kapsakcj
closed
3 years ago
2
incorrect link on main README for parse sample entries
#57
kapsakcj
closed
1 year ago
0
SARS-CoV-2
#56
lskatz
closed
3 years ago
0
GitHub Actions unit testing
#55
lskatz
closed
3 years ago
0
Detect taxa in parse sample sheet page
#54
lskatz
opened
3 years ago
0
SARS-CoV-2
#53
lskatz
opened
3 years ago
1
SPAdes assembly
#52
lskatz
opened
3 years ago
1
Plasmid plugin
#51
lskatz
opened
3 years ago
0
Documentation
#50
lskatz
closed
3 years ago
0
Need to document assembly workflow
#49
lskatz
opened
3 years ago
0
Docker multistage
#48
lskatz
closed
3 years ago
0
Multistage docker building
#47
lskatz
closed
3 years ago
1
Warnings for MLST
#46
lskatz
opened
4 years ago
0
Cleaned reads plugin
#45
lskatz
opened
4 years ago
1
discuss available resources
#44
lskatz
closed
4 years ago
1
Clarify/clean up CONTAINERS.md
#43
kapsakcj
closed
4 years ago
1
Consider adding information about compute resources needed
#42
lfaller
closed
4 years ago
7
Please consider fully moving to docker for installation purposes
#41
lfaller
closed
4 years ago
5
Pipeline does not exit gracefully if sample files are listed in sample sheet but no FASTQ data is present
#40
lfaller
closed
4 years ago
3
Does the --parsesamplesheet option still exist?
#39
lfaller
closed
4 years ago
1
Please complete the Apache license copyright field
#38
lfaller
closed
4 years ago
1
Switch to Fasten from CG-Pipeline in a future version of SneakerNet
#37
lskatz
opened
4 years ago
0
Documentation for new organisms
#36
lskatz
closed
4 years ago
1
add Curtis' ORCiD and WDS affiliation [ci skip]
#35
kapsakcj
closed
4 years ago
3
Kraken is too sensitive for calling contamination
#34
lskatz
closed
4 years ago
2
Bash hello world example not conforming
#33
lskatz
closed
4 years ago
1
Warnings/errors expansion
#32
lskatz
opened
4 years ago
0
edits/additions to container docs
#31
kapsakcj
closed
4 years ago
2
bcl2fastq missed
#30
kapsakcj
closed
4 years ago
2
add Dockerfile
#29
kapsakcj
closed
4 years ago
1
Docker init
#28
lskatz
closed
4 years ago
6
colorid not checked in dependency checking scripts
#27
kapsakcj
closed
4 years ago
5
Method to add warnings
#26
lskatz
closed
4 years ago
2
pass/fail to include 7-gene MLST?
#25
lskatz
opened
4 years ago
1
Add Salmonella genome to test set
#24
lskatz
closed
4 years ago
1
Need unit testing
#23
lskatz
closed
4 years ago
1
Better dependency descriptions in scripts
#22
lskatz
closed
4 years ago
1
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