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wurmlab / afra

Genome Annotation for the Masses
http://afra.sbcs.qmul.ac.uk
Apache License 2.0
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Implement getSpliceSites #88

Closed hargup closed 9 years ago

hargup commented 9 years ago

This builds on the work of @yeban.

yeban commented 9 years ago

Won't work if transcript on minus strand. Won't work if splice sequence is lowercase or mixedcase, since you only compare against uppercase GT and AG. In markNonCanonicalSpliceSites you are marking the entire intron, instead of just the splice site. See - https://github.com/yeban/afra/commit/47f27ae43998f3a5e1270c1b6fbe1a854cc59f4d.