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nf-core / nascent

Nascent Transcription Processing Pipeline
https://nf-co.re/nascent
MIT License
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Optimize grohmm parameter tuning and transcript calling #67

Open edmundmiller opened 2 years ago

edmundmiller commented 2 years ago

Right now, we're parameter tuning is calling detectTranscripts and then we redo the identification in the transcript calling script, and then do the downstream steps.

Not the end of the world, but definitely a bottleneck in the workflow.

Going to be a followup to #65

edmundmiller commented 2 years ago

We might also be able to clean up the old R objects, as the better results are found in the parameter tuning phase.

edmundmiller commented 1 year ago

https://github.com/dankoc/groHMM/issues/4