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20 Open 33 Closed
20 Open 33 Closed
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Issues list

Update ECTyper and SISTR to latest version. enhancement New feature or request
#145 opened Dec 20, 2024 by mattheww95
Change locidex default from normal to conservative enhancement New feature or request
#144 opened Nov 27, 2024 by mattheww95
Run additional abricate databases enhancement New feature or request
#139 opened Oct 23, 2024 by mattheww95
Add mikrokondo-tools samplesheet to docs enhancement New feature or request
#138 opened Oct 23, 2024 by mattheww95
Upgrade to fastplong for nanopore workflow enhancement New feature or request
#136 opened Oct 21, 2024 by mattheww95
Incorporate database hashes or container has in output enhancement New feature or request
#135 opened Oct 21, 2024 by mattheww95
Add Btyper3 to workflow enhancement New feature or request
#134 opened Oct 21, 2024 by mattheww95
Upgrade to nf-schema from nf-validation enhancement New feature or request
#133 opened Oct 21, 2024 by mattheww95
Add better documentation for locidex manifest usage enhancement New feature or request
#132 opened Oct 21, 2024 by mattheww95
Add an option to trigger sample failure on metagenomic samples enhancement New feature or request
#131 opened Oct 21, 2024 by mattheww95
Add option to not perform assembly enhancement New feature or request
#130 opened Oct 21, 2024 by mattheww95
Incorporate hARMonization for formatting of AMR inputs enhancement New feature or request
#129 opened Oct 14, 2024 by mattheww95
Incorporate AMRRules for interpretation of antimicrobial sensitivity enhancement New feature or request
#128 opened Oct 14, 2024 by mattheww95
--skip_metagenomic_detection should default to true enhancement New feature or request
#108 opened Sep 6, 2024 by mattheww95
Tokenize species tag on output from Mash and Kraken2 enhancement New feature or request
#100 opened Aug 19, 2024 by mattheww95
Add clean up directive to CheckM enhancement New feature or request
#53 opened Mar 22, 2024 by mattheww95
Reduce temporary file usage in the contaminant removal step enhancement New feature or request
#24 opened Feb 7, 2024 by mattheww95
Update Bakta to v1.9.2 to manage skip amrfinder plus bug bug Something isn't working
#21 opened Feb 6, 2024 by mattheww95
Add option to specify SRAs as input enhancement New feature or request
#17 opened Dec 8, 2023 by mattheww95
Down sampling of genomes with uneven coverage should flag be a quality flag enhancement New feature or request
#13 opened Nov 22, 2023 by mattheww95
@mattheww95
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