Support other host transcriptome aligners

sterrettJD / HoMi

Host-microbiome dual transcriptome pipeline

https://homi-pipeline.readthedocs.io

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Closed sterrettJD closed 6 months ago

sterrettJD commented 9 months ago

STAR, HISAT?

sterrettJD commented 6 months ago

HISAT2:

[x] add func to check config for aligner type
[x] document aligner type options
[x] func to specify correct conda environment
[x] remove bbmap from rule names
[x] update shell command in rule to check param for aligner type. Run the proper one

sterrettJD commented 6 months ago

Addressed in #54