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poreCov
SARS-CoV-2 workflow for nanopore sequence data
https://case-group.github.io/
GNU General Public License v3.0
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Add Scorpio
#173
hoelzer
closed
2 years ago
5
Trimbam
#172
replikation
closed
2 years ago
2
fix output channel for nanopolish
#171
hoelzer
closed
2 years ago
1
IUPAC code
#170
hoelzer
closed
1 year ago
6
Untrimmed BAM files
#169
premanand17
closed
2 years ago
13
read length filter before classification #167
#168
MarieLataretu
closed
2 years ago
8
Classification strategy after initial read filtering
#167
hoelzer
closed
2 years ago
8
not enough reads in all samples; could not generate any genomes
#166
omarkr8
closed
2 years ago
6
Midnight primers, which settings
#165
omarkr8
closed
2 years ago
3
include var skip primers
#164
replikation
closed
2 years ago
0
Autodownload of example FASTQ fails
#163
hoelzer
closed
2 years ago
4
Error in executing read_classification (Kraken2)
#162
Krysasp
closed
2 years ago
10
Filter/ trim question
#161
omarkr8
closed
2 years ago
7
set min length to 100 for rapid
#160
replikation
closed
2 years ago
0
nextflow/poreCov Error : Nout enough reads all samples, please investigate results/1.Read_quality
#159
bioinfo-ebiogen
closed
2 years ago
8
--min_depth function
#158
omarkr8
closed
2 years ago
4
Nextclade docker update
#157
replikation
closed
2 years ago
5
Consider addition of "Variable"-tool
#156
DataSpott
closed
2 years ago
1
Add guppy/medaka models, print out 'Description' column
#155
RaverJay
closed
2 years ago
6
Number of CPUs
#154
karthick1087
closed
2 years ago
6
add V4 primer repair output
#153
hoelzer
closed
2 years ago
0
Average coverage
#152
ebarretoh
closed
2 years ago
1
Illumina support
#151
karthick1087
closed
2 years ago
4
Nextclade update
#150
ebarretoh
closed
2 years ago
4
Nanoplot error
#149
karthick1087
closed
2 years ago
5
Amplicon repair script only outputs repair primer IDs for V3 and V1200
#148
hoelzer
closed
2 years ago
5
Citation
#147
replikation
closed
2 years ago
0
add wildcard to also detect new V4 depth files
#146
hoelzer
closed
2 years ago
1
The help mssg does not show the newest release version
#145
hoelzer
closed
2 years ago
1
test commit
#144
hoelzer
closed
2 years ago
0
update medaka models
#143
hoelzer
closed
2 years ago
2
Show available Guppy and Medaka models
#142
hoelzer
closed
2 years ago
3
adding new primer scheme data
#141
replikation
closed
2 years ago
0
Update README.md
#140
RaverJay
closed
2 years ago
0
changed artic container
#139
replikation
closed
3 years ago
3
`--single` flag is not usable with `--samples` flag
#138
DataSpott
closed
2 years ago
1
Add vbz compression plugin to nanozoo/artic container
#137
iferres
closed
3 years ago
2
Optional "description" column in report TSV/Excel
#136
hoelzer
closed
2 years ago
5
Fix134
#135
replikation
closed
3 years ago
2
nanopolish wf expecting medaka output
#134
iferres
closed
3 years ago
2
change nextclades base OS
#133
replikation
closed
3 years ago
0
New Nextclade container, v0.9.2
#132
hoelzer
closed
3 years ago
6
Support for V4 primers
#131
replikation
closed
2 years ago
0
new splitfasta requires 4 CPUs -- and will not run with --cpus 1 --max_cpus 1
#130
RaverJay
closed
3 years ago
1
stub dryrun tests
#129
replikation
closed
3 years ago
1
update covarplot
#128
hoelzer
closed
3 years ago
0
Check for WSL support (Linux inside Windows)
#127
RaverJay
closed
2 years ago
5
Add del to json
#126
DataSpott
closed
3 years ago
1
Expand test_fastq-profile to generate json-outputs
#125
DataSpott
closed
2 years ago
1
Add Deletions to json-output
#124
DataSpott
closed
3 years ago
0
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