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MHH-RCUG
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nf_wochenende
A nextflow version of the Wochenende reference metagenome binning and visualization pipeline
MIT License
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containers for Wochenende
#99
colindaven
opened
1 week ago
0
Interpretation of Wochenende Results
#98
arpit20328
opened
7 months ago
11
Colin dev
#97
colindaven
closed
1 year ago
0
implement dynamic mismatch filter for long reads based on read length
#96
colindaven
opened
1 year ago
0
Add samtools coverage viz
#95
colindaven
opened
1 year ago
0
Filter out bwa mem PE poor alignments
#94
colindaven
opened
1 year ago
0
bwa soft clipping improvements
#93
colindaven
closed
1 year ago
0
fastp PE read output bug
#92
colindaven
opened
1 year ago
0
mm.bam.bai emission causes problems
#91
colindaven
closed
1 year ago
0
remove supplementary alignments
#90
colindaven
closed
1 year ago
0
PE reads - bwa mem alignment and softclipping issues
#88
colindaven
opened
2 years ago
15
sync main
#87
colindaven
closed
2 years ago
0
correct fastp PE adapter bug
#86
colindaven
closed
2 years ago
0
fastp PE adapter bugs
#85
colindaven
closed
2 years ago
0
Running nf_wochenende with fastp
#84
irosenboom
closed
2 years ago
3
add remove secondary alignment function and config
#83
colindaven
closed
2 years ago
0
remove secondary alignments nosec
#82
colindaven
closed
2 years ago
0
haybaler in nf_wochenende - create filtered and unfiltered read outputs
#81
colindaven
closed
2 years ago
1
for minimap2 remove secondary alignments by default
#80
colindaven
opened
2 years ago
5
better logging, simpler config, optional stages
#79
colindaven
closed
2 years ago
0
only output useful files, remove some /dev/null log eating code
#78
colindaven
closed
2 years ago
0
stop sending tool output to dev null instead of logs
#77
colindaven
closed
2 years ago
2
raspir error
#76
LisaHollstein
closed
2 years ago
15
multiqc
#75
LisaHollstein
opened
2 years ago
1
Dev
#74
LisaHollstein
closed
2 years ago
0
tune output
#73
colindaven
closed
2 years ago
1
add optional process stages
#72
colindaven
closed
2 years ago
0
Dev
#71
LisaHollstein
closed
2 years ago
0
README
#70
colindaven
closed
2 years ago
0
README
#69
colindaven
closed
2 years ago
0
0_1_3 growth rate improvements
#68
colindaven
closed
2 years ago
1
output csvs from growth rate not folders
#67
colindaven
closed
2 years ago
0
growth rate error
#66
LisaHollstein
closed
2 years ago
24
metagenome data for testing
#65
irosenboom
opened
2 years ago
1
dev_configs
#64
colindaven
closed
2 years ago
0
sync dev into colin_dev
#63
colindaven
closed
2 years ago
0
longreads testing and version bump
#62
colindaven
closed
2 years ago
0
lisas heatmaps and heattree changes
#61
colindaven
closed
2 years ago
1
R
#60
LisaHollstein
closed
2 years ago
1
Introduce optional stages in nextflow.config
#59
colindaven
closed
2 years ago
0
wochenende alignment fails if nodup not set up - duplicates
#58
colindaven
opened
2 years ago
0
human reads
#57
LisaHollstein
opened
2 years ago
4
Dev
#56
LisaHollstein
closed
2 years ago
0
resolve bugs. functionality not all tested yet
#55
colindaven
closed
2 years ago
0
Dev
#54
LisaHollstein
closed
2 years ago
0
0_1_2 more boolean parameters reassigned
#53
colindaven
closed
2 years ago
0
Dev
#52
LisaHollstein
closed
2 years ago
0
set haybaler filter parameters in config file
#51
colindaven
closed
2 years ago
0
multiple input testing
#50
colindaven
closed
2 years ago
0
plots for all input files ?
#49
colindaven
closed
2 years ago
1
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