Rbk mode #197

GeorgetteTanner · 2023-09-05T16:53:23Z

Added a new mode "rbk" (rapid barcode kit) to replicate the read distribution seen in Nanopore amplicon rbk data, where forward reads are enriched at the amplicon 3' end and reverse reads are enriched at the 5' end.
Stopped simulating unaligned flanking head and tail regions in all modes, with option to turn it back on if required.
Fixed an issue where when a minimum read length parameter was set in 'genome' or 'rbk' mode, if a generated read was too short it was repeatedly reset and mutated until it reached the length threshold. This resulted in an unrealistically high number of reads just longer than the minimum threshold. Now the read is just discarded and a new read length randomly sampled.
Added a new pre-trained error model: amplicon-rbk

GeorgetteTanner added 3 commits September 5, 2023 16:29

rbk model, no flanking, read lengths

0f3fef8

update readme

0960f52

update read_analysis.py

e532996

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