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artic-network
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fieldbioinformatics
The ARTIC field bioinformatics pipeline
MIT License
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Version 1.4.1 Release
#137
BioWilko
opened
1 month ago
0
1.4.0 dev m1
#136
rmcolq
closed
1 month ago
0
1.4.0 pre-release version
#135
BioWilko
closed
1 month ago
0
PyVCF assigns a QUAL value of '.' instead of zero
#134
knewl
opened
7 months ago
0
htslib =1.17 dependency PLEASE UPDATE
#133
robertwhbaldwin
opened
7 months ago
1
Error: bcftools consensus fail with overlapping variants
#132
arianna-smith
opened
7 months ago
5
Custom bed file with "primer gaps" causes workflow to crash at artic-tools vcf_checker step
#131
DABAKER165
closed
10 months ago
1
Conda environment set up
#130
zkkhalil
opened
1 year ago
3
Clarify what's meant by 'Suppress variant'
#129
smsaladi
opened
1 year ago
0
KeyError: 'SupportFraction' when running margin_cons.py
#128
GammaCarbon7
opened
1 year ago
0
Update medaka version
#127
laura-bankers
closed
1 year ago
2
Artic v5 mismatched primer names in bedfile causes "dropped" amplicons
#126
Sam-Sims
closed
1 year ago
1
Overlapping variants in fail.vcf and pass.vcf cause preconsensus to be masked and thus bcftools complains when applying the "pass" variant
#125
Sam-Sims
opened
1 year ago
2
no version information available (required by samtools)
#124
alexahess
opened
1 year ago
5
Update vcftagprimersites.py
#123
mattloose
closed
1 year ago
0
Conda recipe for 1.2.3 not working
#122
tavareshugo
closed
1 year ago
8
pipeline has stopped working...!
#121
rebeelouise
opened
1 year ago
5
What is the default mindepth ?
#120
Hugsh
closed
2 years ago
4
artic_vcf_merge Fails
#119
Rohit-Satyam
closed
2 years ago
2
Fix align_trim:find_primer
#118
boospooky
opened
2 years ago
1
fix: update longshot to avoid intermittent `thread 'main' panicked at 'assertion failed: p <= 0.0'` error
#117
KatSteinke
closed
2 years ago
1
Unable to install artic on mac
#116
Rosina-Codes
opened
2 years ago
0
Error with medaka consensus
#115
lqhungpt
closed
2 years ago
1
vcf_filter.py filtering parameters and align_trim.py for alternative primer scheme
#114
kakuk9
opened
2 years ago
0
fix: Ignore bases outside the reference
#113
RenanWA
opened
2 years ago
0
feat: make flag -A in Longshot optional
#112
RenanWA
opened
2 years ago
0
Fix align_trim to deal with long deletion containing left primer
#111
hsnguyen
opened
2 years ago
0
bugfix: bcftools overlapping variants issue
#110
rzlim08
opened
2 years ago
0
Longshot `thread 'main' panicked at 'assertion failed: p <= 0.0'` error: possible to update longshot?
#109
KatSteinke
closed
2 years ago
3
artic pipeline not installing properly: ModuleNotFoundError: No module named 'importlib.metadata'
#108
aduton2000
closed
2 years ago
1
SARS-CoV-2 workflow comparison - kindly check if your work is represented correctly
#107
thomasbtf
closed
2 years ago
3
issue assigning variants occuring within an amplicon overlap region
#106
george-githinji
opened
2 years ago
3
Muscle 5.1 breaks the excution of `artic minion`
#105
pdp10
closed
2 years ago
6
v1.2.2
#104
BioWilko
closed
2 years ago
0
Artic_vcf_merge failed
#103
idolawoye
closed
2 years ago
2
artic minion fails with midnight primers
#102
rzlim08
closed
2 years ago
1
Question: read group assignment in align_trim
#101
gianfilippo
opened
2 years ago
1
Medaka calls a 5 nt deletion instead of a 6 nt deletion
#100
MarieLataretu
opened
2 years ago
1
Question regarding align_trim.pl
#99
ARastrojo
opened
2 years ago
17
V1200/midnight primer scheme
#98
rebeelouise
opened
2 years ago
1
Deletion no longer being called
#97
cpmorris82
opened
2 years ago
0
Could not find primer scheme
#96
amv33576
opened
2 years ago
1
EPI2ME ARTIC failing for Midnight primers
#95
MMitali13
opened
3 years ago
1
Variant in amplicon overlapping region
#94
hannahgoldswain
opened
3 years ago
2
artic_get_stats fails because V4 primer names in align_trim report don't match names in .bed file
#93
KatSteinke
closed
3 years ago
1
SNP filtering/masking/soft clipping with medaka
#92
shimbalama
opened
3 years ago
0
Error when running with too few reads/very low coverage
#91
Coppini
opened
3 years ago
3
How do deal with overlapping mutations in pass.vcf and fail.vcf?
#90
rpetit3
opened
3 years ago
0
quality Filter for pass.vcf
#89
pratibha-kadam
opened
3 years ago
0
artic-tools check_vcf Segmentation fault on empty VCF files
#88
rdeborja
opened
3 years ago
5
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