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icgc-argo / seq-tools

Command line tools for ARGO sequencing data validation
https://github.com/icgc-argo/seq-tools
GNU Affero General Public License v3.0
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New check: for RNA-Seq BAM submit data, detect the `library_strandedness` and check whether it matches what's in the metadata #79

Open lindaxiang opened 2 years ago

edsu7 commented 2 years ago

Test addressing problems: c690_check_strand_specificity_in_bam

Resources: Bam w/ mismatching strandedness metadata Bam w/ metadata missing strandedness

puneet-oicr commented 2 years ago

Scope of the ticket discussed on Friday - with Edmund and Linda New ticket created for FastQ

edsu7 commented 2 years ago

Moving to icebox until FASTQ complement is addressed https://github.com/icgc-argo/seq-tools/issues/92