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artic-network
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fieldbioinformatics
The ARTIC field bioinformatics pipeline
MIT License
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Update medaka to newer version.
#83
matt-plumb
closed
10 months ago
0
Question regarding --normalise
#82
cswift3
opened
3 years ago
0
Command failed:align_trim
#81
gezthxbio
closed
3 years ago
1
Test Datasets
#80
kek12e
opened
3 years ago
2
primer scheme download failed
#79
ReemaSingh
opened
3 years ago
0
Tests fail on M1 Mac
#78
joshquick
closed
3 years ago
1
rebase hetzy mod to 1.2.1 upstream
#77
macieksk
opened
3 years ago
0
Multiqc issue
#76
hannahgoldswain
closed
2 years ago
2
annotation to the vcf file to receive the mutations amino acids and locations
#75
dinavb
closed
3 years ago
1
Tmp file issue while using medaka instead of longshot
#74
amandawarr
opened
3 years ago
2
Change to overlap-based method of amplicon resolution
#73
cjw85
opened
3 years ago
0
align_trim strand consideration
#72
chienchi
closed
3 years ago
2
coverage-based instead of counter-based normalisation
#71
MarkusHaak
opened
3 years ago
0
Release 1.3.0
#70
will-rowe
opened
3 years ago
5
Release 1.3.0
#69
will-rowe
opened
3 years ago
4
patch 1.2.0 > 1.2.1
#68
will-rowe
closed
3 years ago
1
Final changes for 1.2.0
#67
will-rowe
closed
3 years ago
0
Longshot issue with test-runner.sh
#66
prepoint
closed
3 years ago
2
Question about --model in medaka pipeline
#65
Psy-Fer
closed
2 years ago
2
environment.yml
#64
fabgenomics
closed
3 years ago
2
adding logo
#63
will-rowe
closed
3 years ago
0
updating docs
#62
will-rowe
closed
3 years ago
0
Enforce amplicon coverage
#61
will-rowe
closed
3 years ago
1
Optional longshot, optional overlap screening and optional primer scheme download/checking
#60
will-rowe
closed
3 years ago
1
Heterozygotic variants more precise filtering
#59
macieksk
opened
3 years ago
2
Heterozygotic variants more precise filtering
#58
macieksk
closed
3 years ago
4
Update medaka commands, ready for https://github.com/artic-network/fieldbioinformatics/pull/55
#57
will-rowe
closed
3 years ago
0
SARS-CoV-2 visualization
#56
AgustinPardo
closed
3 years ago
1
update of env.yml for medaka v1.0.3 and dependencies
#55
sagrudd
closed
3 years ago
4
Compatibility between new MinKNOW and Artic pipeline
#54
Serka-M
closed
3 years ago
3
Duplicate variants in VCF outputs causing bcftools consensus error
#53
DarianHole
opened
3 years ago
7
necessity of two-barcode requirement
#52
jvolkening
opened
3 years ago
0
read depth plot bug/feature?
#51
jvolkening
closed
3 years ago
2
plotting in headless session
#50
will-rowe
closed
3 years ago
0
artic minion pyhton3.6 error
#49
shashibioinfo143
closed
3 years ago
4
fix for https://github.com/artic-network/fieldbioinformatics/issues/42
#48
will-rowe
closed
3 years ago
0
fix for right primer merge
#47
will-rowe
closed
4 years ago
3
adding guppyplex to test runner
#46
will-rowe
closed
4 years ago
0
adding test for guppyplex
#45
will-rowe
closed
4 years ago
0
patching primer scheme handling
#44
will-rowe
closed
4 years ago
0
--normalise argument doesn't behave as expected
#43
joshquick
closed
4 years ago
1
Skip nanopolish index when --skip-nanopolish is used
#42
joshquick
closed
3 years ago
1
feature to warn when alignments have regions with low coverage readgroups but collectively pass the threshold
#41
will-rowe
closed
4 years ago
2
Update version.py
#40
will-rowe
closed
4 years ago
1
removing flongle data from repo and swapping it to a download in the …
#39
will-rowe
closed
4 years ago
2
remove ebov-flongle/fast5_pass
#38
tolot27
closed
4 years ago
1
plotting tweaks
#37
will-rowe
closed
4 years ago
0
adding consensus equality check to the minion validator
#36
will-rowe
closed
4 years ago
0
Fix coverage_mask.txt output
#35
egonozer
closed
4 years ago
1
artic_make_depth_mask now ignoring RG1 coverages
#34
egonozer
closed
4 years ago
3
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