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15 Open 88 Closed
15 Open 88 Closed
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Issues list

IRMA fails with too many reads
#200 opened Dec 27, 2022 by frankambrosio3
2
Implement workflow logic to use "mpox" as the target organism for TheiaCoV MPXV analysis
#192 opened Nov 29, 2022 by frankambrosio3
link to the notion page in 2.2.0
#188 opened Nov 9, 2022 by neranjan007
1
fastq-scan fails on large FASTQs
#183 opened Oct 20, 2022 by kapsakcj
2
Floating NextClade SC2 lineage calls to output table priority:3 (medium)
#176 opened Oct 3, 2022 by kevinlibuit
@kapsakcj
TheiaCoV_Illumina_* if MPXV reference is not found, will use SC2 rather than error
#168 opened Aug 9, 2022 by michellescribner
iVar amino acid data not outputted
#167 opened Aug 9, 2022 by michellescribner
Gisaid assembly files produced for empty consensus fastas
#153 opened Jun 16, 2022 by michellescribner
consensus_qc task not compatible with lowercase seqs in FASTAs
#149 opened May 13, 2022 by kapsakcj
Issue with Medaka SC2 frameshifts and GISAID/GenBank rejections
#136 opened Apr 10, 2022 by kevinlibuit
@kapsakcj
1
Adding TheiaCoV_FASTA and Augur workflows
#135 opened Apr 10, 2022 by kevinlibuit
Adding sc2rf task to TheiaCoV workflows
#123 opened Mar 29, 2022 by kevinlibuit
SAM Refiner enhancement New feature or request
#117 opened Mar 2, 2022 by frankambrosio3
Identify and list Amb alleles from pangolin_report output file.
#67 opened Aug 25, 2021 by frankambrosio3
Capture pool 1/2 read percentages
#63 opened Aug 19, 2021 by kevinlibuit
ProTip! What’s not been updated in a month: updated:<2024-11-25.