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rki-mf1
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CoVpipe2
SARS-CoV-2 genome reconstruction for Illumina data in Nextflow
GNU General Public License v3.0
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Skip reporting step
#76
MarieLataretu
opened
1 month ago
0
CI for variant calling via Github Actions and CIEVaD
#75
Krannich479
closed
2 months ago
2
Marie lataretu/issue72
#74
MarieLataretu
closed
4 months ago
0
filter sc2rf output to make reporting work again
#73
hoelzer
closed
4 months ago
1
Rmarkdown report fails: Detected 7 column names but the data has 5 columns
#72
hoelzer
closed
4 months ago
6
sc2rf output leads to error in summary_report.Rmd
#71
anfarr
closed
4 months ago
1
added parameters seq_threshold and n_threshold
#70
MarieLataretu
closed
5 months ago
0
Release v0.5
#69
MarieLataretu
closed
5 months ago
0
Update nextclade3
#68
MarieLataretu
closed
5 months ago
0
added -r to nextflow run repo/tool calls
#67
MarieLataretu
closed
1 year ago
0
primer clipping for polio virus
#66
NmnBttr
closed
6 months ago
3
sc2rf issue
#65
ZuneraJ
opened
1 year ago
1
fixed reporting on the nextclade dataset tag
#64
MarieLataretu
closed
1 year ago
0
changed channel order for conda envs
#63
MarieLataretu
closed
1 year ago
0
added badges
#62
MarieLataretu
closed
1 year ago
0
Add citations
#61
MarieLataretu
closed
1 year ago
0
v0.4.0
#60
MarieLataretu
closed
1 year ago
0
Feature filter indels
#59
MarieLataretu
closed
1 year ago
0
Enhancment nextclade dataset version
#58
MarieLataretu
closed
1 year ago
0
conda directive correctly set in standard profile
#57
MarieLataretu
closed
1 year ago
0
conda not activated at nextclade if standard profile is used
#56
MarieLataretu
opened
1 year ago
1
exchanged deprecated implicit variable
#55
MarieLataretu
closed
1 year ago
0
Fix report summary header
#54
MarieLataretu
closed
1 year ago
1
[enhancement] timestamp in report
#53
MarieLataretu
closed
1 year ago
0
correct md5sums for latest nextclade and pangolin versions
#52
MarieLataretu
closed
1 year ago
0
check out output changes in latest nextclade version
#51
MarieLataretu
closed
1 year ago
1
added conda.enabled = true to config
#50
MarieLataretu
closed
1 year ago
0
Visuals
#49
hoelzer
opened
1 year ago
0
use sc2rf from ncov-recombinant repo
#48
MarieLataretu
closed
1 year ago
0
Create LICENSE.md
#47
MarieLataretu
closed
1 year ago
0
Version v0.3
#46
MarieLataretu
closed
1 year ago
0
[Feature] full single end support
#45
MarieLataretu
closed
1 year ago
0
Dev
#44
MarieLataretu
closed
1 year ago
0
checks for bedpe script
#43
MarieLataretu
closed
1 year ago
0
Dev
#42
MarieLataretu
closed
2 years ago
0
check bcftools consensus generation / ambiguity calls
#41
MarieLataretu
closed
2 years ago
1
MarieLataretu/issue39
#40
MarieLataretu
closed
2 years ago
0
gt adjustment for all heterozygotes
#39
MarieLataretu
closed
2 years ago
0
result files without sample specific name get overwritten when published in the same results dir
#38
MarieLataretu
opened
2 years ago
0
Release v0.2.4
#37
MarieLataretu
closed
2 years ago
1
[FEATURE] added sc2rf
#36
MarieLataretu
closed
2 years ago
0
MarieLataretu/issue34
#35
MarieLataretu
closed
2 years ago
0
add skip-scorpio param to pangolin
#34
MarieLataretu
closed
2 years ago
0
Dev
#33
MarieLataretu
closed
2 years ago
0
publish filtered and adjusted vfcs to var calling dir
#32
MarieLataretu
closed
2 years ago
0
option for custom kraken db
#31
MarieLataretu
closed
2 years ago
0
Dev
#30
MarieLataretu
closed
2 years ago
0
check pangolin and nextclade on older samples
#29
MarieLataretu
closed
2 years ago
1
make conda update more stable
#28
MarieLataretu
closed
2 years ago
0
add sc2rf
#27
MarieLataretu
closed
2 years ago
2
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