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24 Open 29 Closed
24 Open 29 Closed
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Issues list

Executions fails because Nextflow preview function is deprecated
#134 opened Mar 10, 2024 by alethomas
SARS-CoV-2 workflow comparison - kindly check if your work is represented correctly
#119 opened Mar 7, 2022 by thomasbtf
A new release for this pipeline ?
#117 opened Feb 23, 2022 by valentinelsra
2
Pin pip version in environment.yml
#116 opened Feb 1, 2022 by MattBashton
readgroup not found in provided primer scheme (1) for V4 scheme
#111 opened Aug 5, 2021 by esha-joshi
5
GFF included repo doesn't include ORF1ab frameshift
#110 opened Jun 28, 2021 by tnguyensanger
New protocolo Nanopore V1200
#105 opened May 31, 2021 by ghost
Unparseable date error
#104 opened May 6, 2021 by wtmatlock
1
variants with low SupportFraction change the sequence
#103 opened May 3, 2021 by paraslonic
Snakemake file
#102 opened Apr 30, 2021 by ksw9
1
Nanopore-conda-environment.yaml update
#97 opened Mar 29, 2021 by tarah28
Failed samples
#96 opened Feb 18, 2021 by gdauria
docker profile not working
#95 opened Feb 8, 2021 by rrdavis77
3
Access to undefined parameter 'gff'
#94 opened Jan 29, 2021 by hodeco
2
Frameshift variants may interfere with typing in type_vcf.py, even with low ALT_FREQ
#92 opened Jan 16, 2021 by dfornika
7
Make QC cutoffs configurable, but with sensible defaults
#89 opened Jan 14, 2021 by m-bull
Add --force-no-qc flag
#88 opened Jan 14, 2021 by m-bull
Sample names inherit part of illumina's nomenclature for index and lane
#87 opened Jan 14, 2021 by MattBashton
Error: prepareReferenceFiles
#86 opened Dec 26, 2020 by yockping
4
Update documentation
#85 opened Dec 24, 2020 by m-bull
Add variant count for each gene to qc.csv
#84 opened Dec 24, 2020 by m-bull
Check for nanoporeBarcodeDirs doesn't work for S3 path
#36 opened Apr 23, 2020 by lch14forever
3
Maintain changelog and have tags
#17 opened Apr 6, 2020 by sb10
2
Licensing and attribution stuff missing
#2 opened Mar 25, 2020 by tcutts
ProTip! Exclude everything labeled bug with -label:bug.