Related Issues (20)
- check whether the output directory is writeable
- Provide Seurat object as output HOT 3
- Verbosely describe how to contribute
- Settings parsing - more descriptive error messages
- check whether the genome is defined
- Add number of cells per experiment to the report
- FastqToSAM complains if header contains barcode
- Replace dropseqtools with STAR solo HOT 1
- environment.yml file missing for conda installation HOT 1
- Add whitelist option to the pipeline
- r-argparse should be checked by configure.ac
- Pipeline dies on sort bam step if tmp files exist
- STAR breaks mm Matrix format for Velocyto output
- loom2sce should be called only once
- Local pipeline install fails during convert_matrix_from_mtx_to_loom.py HOT 3
- check for corresponding chromosome names in GTF and fasta
- convert_matrix_from_mtx_to_loom:102 - ValueError: Length mismatch: Expected axis has 3 elements, new values have 2 elements
- new version of star will break the pipeline
- m4/ax_r_package.m4 is outdated
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