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gatech-genemark / GeneMark-EP-plus

GeneMark-EP and -EP+: automatic eukaryotic gene prediction supported by spliced aligned proteins
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There are many in-frame stop codon in GeneMark-ES, GeneMark-ET and GeneMark-EP results, how to fix them? #4

Open xiekunwhy opened 2 years ago

xiekunwhy commented 2 years ago

Hi,

There are many in-frame stop codons in GeneMark-ES, GeneMark-ET and GeneMark-EP results, any way to fix them?

Best, Kun

tomasbruna commented 2 years ago

Hi Kun,

how did you translate the predictions to proteins? GeneMark can predict partial genes. These can start out of phase, and if the initial phase is not adjusted during translation, many in-frame stop codons will appear.

Best, Tomas