Closed
Milestone
v0.2.0 release
Unstarted Issues (open and unassigned)
0
Ongoing Issues (open and assigned)
0
Completed Issues (closed)
16
- Adjust name of pipeline in README and install environments
- Snakemake vs MultiQC reports
- MultiQC report issue with custom figures
- Change the replicate column in labkey samples table to "samples"
- Create test case for merging multiple lanes rule
- testing script labkey_to_snakemake_table test fails because of aboslute paths
- Merge mulitple lane runs into sample
- Add DE analysis steps
- Error in prepare_files_for_report with single end only
- kallisto summary tables for expression (TPM) and projected raw counts for genes and transcripts
- Repository for publication
- Create project logo
- Pass fragment length and SD to salmon quant single-end
- How should STAR define multimappers
- Extract transcripts from GTF to BED12
- Add rRNA to gtf
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