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43 Open 55 Closed
43 Open 55 Closed
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Issues list

Add module to check quality of Spades assembly
#105 opened Oct 28, 2024 by logankblair
Change assign_context_references.R to give more informative error message
#104 opened Oct 28, 2024 by logankblair
Failed rendering report
#103 opened Oct 23, 2024 by buchanri
2
When all samples have only exclusive user-defined references. the pipeline breaks bug Something isn't working
#101 opened Oct 22, 2024 by zachary-foster
@zachary-foster
Add header to FIND_ASSEMBLIES output enhancement New feature or request good first issue Good for newcomers
#100 opened Oct 22, 2024 by zachary-foster
assign_mapping_reference not being cached bug Something isn't working
#98 opened Oct 12, 2024 by zachary-foster
@zachary-foster
Error when some assembly metadata tsv files are empty and don't contain accessions to download bug Something isn't working
#94 opened Sep 18, 2024 by masudermann
Large and complex test data set
#92 opened Aug 14, 2024 by zachary-foster
9 tasks
Add maximum file size parameter to filtered downloaded assemblies and reads
#91 opened Aug 14, 2024 by zachary-foster
Bakta database bug ("amrfinder error") bug Something isn't working
#90 opened Aug 14, 2024 by zachary-foster
1
Error rendering report when I don't have core gene phylogeny (eukaryote dataset) bug Something isn't working
#89 opened Aug 6, 2024 by masudermann
2
Fail to create conda environment for sourmash_sketch
#87 opened Jul 25, 2024 by buchanri
1
Looking for sample sheet metadata not in the provided path
#86 opened Jul 24, 2024 by buchanri
1
BBmap_Sendsketch not finding SRA
#85 opened Jul 18, 2024 by buchanri
Sample sheet error
#83 opened Jul 15, 2024 by buchanri
1
read2tree issue on mixed dataset bug Something isn't working
#82 opened Jul 15, 2024 by masudermann
Error when testing xanthomonas small dataset bug Something isn't working
#81 opened Jul 15, 2024 by buchanri
Add subsetting of variants when there are more than a user-defined maximum
#80 opened Jul 2, 2024 by zachary-foster
Make SUBSET module name its output by the sample ID
#79 opened Jun 13, 2024 by zachary-foster
Make DOWNLOAD_ASSEMBLIES store data more effeciently
#78 opened Jun 13, 2024 by zachary-foster
BUSCO graphs for assembled genomes
#77 opened Jun 3, 2024 by grunwald
1
We need to review the step where we convert Graphtyper VCF outputs files to tabular format using vcf-to-tab bug Something isn't working
#76 opened May 31, 2024 by masudermann
1
Report fails to render if I don't have POCP matrix-an issue when dealing with eukaryotic datasets bug Something isn't working
#75 opened May 31, 2024 by masudermann
Killed with a warning?
#74 opened May 29, 2024 by cahuparo
Graphtyper flag may need to be added if working with Nanopore data otherwise empty merged vcf file
#70 opened May 2, 2024 by masudermann
4
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