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epi2me-labs
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wf-artic
ARTIC SARS-CoV-2 workflow and reporting
https://labs.epi2me.io/
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[Bug]: Process 'pipeline:pangolin' terminated
#64
leoncaly
closed
1 year ago
4
Are homoplasmic site masked when running wf-artic
#63
Rohit-Satyam
closed
1 year ago
2
Insights required in pipeline arguments and a feature request
#62
Rohit-Satyam
closed
2 years ago
5
[Bug]: Error executing process > 'handleSingleFile
#61
Rohit-Satyam
closed
2 years ago
8
[Bug]: Telemetry process takes much time
#60
mnemosymenicolas
closed
1 year ago
4
Midnight-ONT/V3 bed file
#59
wwlsung
closed
1 year ago
1
Updates for Midnight-IDT/V2 primer schemes
#58
llk578496
closed
2 years ago
3
[Bug]: Unable to pull
#57
leoncaly
closed
2 years ago
5
Primer Drop Out
#56
Ryan-Wang-JNU
closed
2 years ago
14
Demultiplexed samples not found in data mount
#55
giorgi-veleanu
closed
2 years ago
9
Error executing process > 'pipeline:report'
#54
DanilKrivonos
closed
1 year ago
1
WARN: Found unexpected parameters: --scheme_dir: primer_schemes, cannot run test_data
#53
koppk
closed
2 years ago
1
conflict of SNP and deletion
#52
JakeSLLeung
closed
1 year ago
1
Allele frequency threshold for failed vcf
#51
llk578496
closed
2 years ago
1
bin/scheme_to_nextclade.py generates incorrect primers for Midnight-ONT_V3
#50
DABAKER165
closed
1 year ago
3
[request] Avoid using colons in directories names
#49
waltergallegog
closed
2 years ago
2
error while executing pipeline with custom_scheme parameter
#48
Wanamalauasha
closed
2 years ago
4
UCX package
#47
jftoupet
closed
2 years ago
4
No Artic output bam file found for primer set 1, Artic failed.
#46
toptant
closed
1 year ago
17
FR: add pangolin --usher parameter as workflow parameter
#45
phyden
closed
2 years ago
5
Not recognising sample sheet in macbookpro
#44
adamkoletis
closed
2 years ago
5
error with creating pangolin environment step when using conda
#43
callumparr
closed
2 years ago
4
pipeline:runARTIC failing
#42
kaganr
closed
2 years ago
6
"--samples" in v0.3.11
#41
nilay-p
closed
2 years ago
5
Warning message
#40
adamkoletis
closed
2 years ago
0
Clean instal of wf-artic 0.3.9
#39
adamkoletis
closed
2 years ago
16
epi2me wf-artic for other viruses
#38
LianaKafetzopoulou
closed
2 years ago
5
Succeded run but not correct output.
#37
adamkoletis
closed
2 years ago
2
run wf-artic with conda --> unable to create Conda environment
#36
MantaRay87
closed
2 years ago
4
Heads up for when you update Nextclade to v1.10.0
#35
corneliusroemer
closed
2 years ago
3
Coverage drop in the first amplicon
#34
llk578496
closed
2 years ago
9
Incorporating the latest pango-designations
#33
lindakohn
closed
2 years ago
2
Process `pipeline:preArticQC (1)` terminated with an error exit status (127)
#32
xxu1022
closed
1 year ago
13
More primer sets
#31
bwlang
closed
2 years ago
1
Naming convention
#30
Ceres90
closed
2 years ago
1
process runArtic silently failing
#29
phyden
closed
2 years ago
1
Incorrectly masking sites in primer regions
#28
DABAKER165
closed
1 year ago
1
Pangolin version update
#27
llk578496
closed
2 years ago
5
Process `pipeline:getVersions` terminated with an error exit status (141)
#26
ineskozar
closed
2 years ago
1
Minimum Depth for variant calling and masking in consensus fasta generation
#25
llk578496
closed
2 years ago
2
Parameterise previously hardcoded depth of coverage ceiling
#24
bede
closed
2 years ago
2
Required internet during the pipeline analysis
#23
adamkoletis
closed
2 years ago
6
epi2me/wf-artic version check
#22
LianaKafetzopoulou
closed
2 years ago
3
Analysis Failed but Coverage is Working
#21
Ceres90
closed
2 years ago
8
pangolin and nextclade versions
#20
LianaKafetzopoulou
closed
2 years ago
4
Issue at the report stage
#19
adamkoletis
closed
2 years ago
6
medaka_model is not a valid enum value
#18
adamkoletis
closed
2 years ago
7
Downsampling algorithm over-downsamples at positions causing lower depth of coverage, and masking positions.
#17
DABAKER165
closed
1 year ago
2
Summary for depth of coverage file is grouping by 20's not by primer or singles
#16
DABAKER165
closed
1 year ago
4
normalise artic minion value is hard coded
#15
DABAKER165
closed
2 years ago
3
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