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Issues list

SARS-CoV-2 ORF1b mutation reporting differences between SnpEff and Nextclade bug Something isn't working
#263 opened Jan 28, 2022 by peterk87 updated Feb 3, 2022
CRAM output enhancement Improvement for existing functionality
#294 opened Mar 5, 2022 by dbrami updated Mar 7, 2022
Add LoFreq Subworkflow enhancement Improvement for existing functionality
#302 opened Apr 4, 2022 by bjohnnyd updated Apr 4, 2022
error at the assembly stage bug Something isn't working
#298 opened Mar 23, 2022 by Mewgia updated Aug 30, 2022
Add option to hard trim amplicon primer sequences enhancement Improvement for existing functionality
#290 opened Mar 1, 2022 by drpatelh updated Aug 31, 2022
Update V1200 primer scheme enhancement Improvement for existing functionality
#330 opened Sep 13, 2022 by ddomman updated Mar 13, 2023 2.7
Add subworkflows to nf-core enhancement Improvement for existing functionality new subworkflow subworkflows
#371 opened Mar 24, 2023 by drpatelh updated Mar 28, 2023
2 of 5 tasks
Choose Kraken2-filtered host enhancement Improvement for existing functionality
#350 opened Jan 12, 2023 by tetedange13 updated Apr 3, 2023 2.7
Minia assembly is non-deterministic in parallel enhancement Improvement for existing functionality
#381 opened May 11, 2023 by tetedange13 updated May 11, 2023
Add support for artic primer set version V5.3.2 enhancement Improvement for existing functionality
#373 opened Mar 24, 2023 by mbdabrowska1 updated Aug 11, 2023
[bug] Fails to find FASTQ files when stored on S3 bug Something isn't working
#385 opened Jul 31, 2023 by adamrtalbot updated Aug 16, 2023
Add QIAseq DIRECT SARS-CoV-2 Kit amplicons enhancement Improvement for existing functionality
#394 opened Aug 30, 2023 by dwinter updated Aug 30, 2023
Problem installing viralrecon bug Something isn't working
#399 opened Oct 13, 2023 by vilocha updated Oct 13, 2023
Split authors in generated RO crate enhancement Improvement for existing functionality
#404 opened Nov 28, 2023 by renatocjn updated Nov 28, 2023
Error when running illumina command bug Something isn't working
#423 opened Apr 8, 2024 by fractaljc updated Apr 8, 2024
Show ref/alt bases in ASCIIGenome screenshots enhancement Improvement for existing functionality
#210 opened Jun 16, 2021 by drpatelh updated Apr 22, 2024
Temp file problem in VARIANTS_IVAR:BCFTOOLS_SORT bug Something isn't working
#415 opened Jan 30, 2024 by Paururo updated May 7, 2024
Properly deal with multiqc in the config files before the next release enhancement Improvement for existing functionality
#411 opened Jan 16, 2024 by maxulysse updated May 10, 2024 2.7
ERROR ~ Error executing process > 'NFCORE_VIRALRECON:NANOPORE:ARTIC_MINION' bug Something isn't working
#383 opened Jun 28, 2023 by alethomas updated May 10, 2024
variant discrepancy between in ivar and snpeff annotated file bug Something isn't working
#429 opened May 13, 2024 by wantingwei updated Jun 10, 2024 2.7
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