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Blosberg / nanopiper

(long read) fastq input to final report
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Need to generalize alignment #9

Closed Blosberg closed 5 years ago

Blosberg commented 5 years ago

There should be an option to set in the config/settings/something to robustly select between cDNA and direct RNA sequencing. At the moment, spliced-RNA is hard-coded https://github.com/Blosberg/nanopore/blob/090bc21fec568aab79ea557429232f422bdd9b37/scripts/00_SM/rules_chunks.py#L94 not ideal, but there are more pressing things to take care of at the moment.

Blosberg commented 5 years ago

resolved with Incoming branch: https://github.com/Blosberg/nanopiper/blob/8f32906a05f749384ecedf908acf881f629a8e1b/scripts/00_SM/rules_chunks.py#L146