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MHH-RCUG
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Wochenende
Deprecated see https://github.com/MHH-RCUG/nf_wochenende : A whole Genome/Metagenome Sequencing Alignment Pipeline in Python3
https://github.com/MHH-RCUG/nf_wochenende
MIT License
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Can Trimmomatic be skipped while running Wochenende ?
#223
arpit20328
opened
1 week ago
3
When input cfdna fastq data is masked (human reads are masked)
#222
arpit20328
opened
2 weeks ago
3
Definition of long and short read in wochenende
#221
arpit20328
opened
5 months ago
1
Not able to find "AlignerBoost.jar" on internet .
#220
arpit20328
opened
5 months ago
4
Not able to find file named "adapters_solid.fa"
#219
arpit20328
opened
5 months ago
2
just README changes
#218
colindaven
closed
2 years ago
0
white to red stems in plot
#217
colindaven
closed
2 years ago
0
remove old owncloud reference
#216
colindaven
closed
2 years ago
0
updated g docs links and deprecation warning
#215
colindaven
closed
2 years ago
0
rm alignerboost binary, update plots and README.md
#213
colindaven
closed
2 years ago
0
remove alignerboost code
#212
colindaven
opened
2 years ago
0
update growth rate path, for nextflow integration
#211
colindaven
closed
2 years ago
0
remove postproc bug
#210
colindaven
closed
2 years ago
0
wochenende_postprocess raspir error
#209
irosenboom
closed
2 years ago
1
add 2021_12 ref + seqins for Marie P
#208
colindaven
closed
2 years ago
0
Raspir update and speedup in postprocess with sbatch
#207
colindaven
closed
2 years ago
1
reporting errors
#206
colindaven
opened
2 years ago
0
seqins analysis, shorten growth rate file paths for windows
#205
colindaven
closed
2 years ago
0
Shorten PNG filename
#204
LisaHollstein
closed
2 years ago
1
Update included raspir
#203
colindaven
closed
2 years ago
1
bbsplit attempt
#202
colindaven
opened
2 years ago
0
Postprocess bugfixes 0.34
#201
colindaven
closed
2 years ago
1
joeldev
#200
vangreuj
closed
2 years ago
0
wochenende_postprocess -a
#199
vangreuj
closed
2 years ago
7
upgrade minimap2
#198
colindaven
opened
2 years ago
0
graalvm trial - eliminate python java and R dependencies in one polyglot jdk dist
#197
colindaven
closed
5 months ago
0
use fastp as about twice as fast as fastqc - test
#196
colindaven
opened
2 years ago
0
update viruses bed
#195
colindaven
closed
2 years ago
0
Refactor all scripts, allow non-SLURM cluster and direct submission
#194
colindaven
closed
2 years ago
0
Update viruses bed in extract, with new cold viruses
#193
colindaven
closed
2 years ago
1
Postproc docs
#192
colindaven
closed
2 years ago
0
Add postprocess args
#191
colindaven
closed
2 years ago
0
postprocess - add bash args for each stage
#190
colindaven
closed
2 years ago
1
add 2021_10 ref
#189
colindaven
closed
2 years ago
0
add docs TOC
#188
colindaven
closed
2 years ago
0
Update docs with ref seqs
#187
colindaven
closed
2 years ago
0
docs updates
#186
colindaven
closed
2 years ago
0
add raspir
#185
colindaven
closed
2 years ago
0
missing modules - pandas, lmfit
#184
colindaven
closed
2 years ago
2
docs changes in dev
#183
colindaven
closed
2 years ago
0
minor SLURM changes
#182
colindaven
closed
2 years ago
0
create optional cleanup script, especially for reporting.
#181
colindaven
opened
2 years ago
5
file names too long
#180
colindaven
closed
2 years ago
2
catch file not found problems
#179
colindaven
closed
3 years ago
1
Growth rate working stably, new ref sequences
#175
colindaven
closed
3 years ago
0
Trial tiebrush instead of mapping quality MQ
#174
colindaven
opened
3 years ago
0
demote 2021_08 ref
#173
colindaven
closed
3 years ago
0
minor update
#172
poer-sophia
closed
3 years ago
0
adjust filename ending from created csv files
#171
poer-sophia
closed
3 years ago
0
Solve bug removing calmd.bam files
#170
poer-sophia
closed
3 years ago
0
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