search

mutalyzer / mutalyzer2

HGVS variant nomenclature checker
https://mutalyzer.nl
Other
98 stars 23 forks source link

Frameshift detection error. #314

Open mutalyzerbot opened 8 years ago

mutalyzerbot commented 8 years ago

Original ticket: https://humgenprojects.lumc.nl/trac/mutalyzer/ticket/124 Original date: 2012/11/09 Original reporter: j DOT f DOT j DOT laros AND lumc DOT nl

The variant: NM_000314.4:c.1176del crashes the name checker because the description extractor tries to find a frameshift.

This is probably because the variant protein is longer than the reference protein and we overflow an array. (describe.py line 262).

mutalyzerbot commented 8 years ago

Original date: 2012/11/28 Original reporter: j DOT f DOT j DOT laros AND lumc DOT nl

The original problem (including crashing) was solved in r642, however,some other problems remain.

AB026906.1:c.105del for example does not return a correct frame shift.

The correct way to solve this is to detect a frame shift from end to start.

mutalyzerbot commented 8 years ago

Original date: 2013/01/22 Original reporter: martijn

Temporarily disabled detection of frameshift in r666.

mutalyzerbot commented 8 years ago

Original date: 2013/01/22 Original reporter: martijn

Example crashing: NM_000330.2:c.663dupC