search

czhu / FulQuant

FulQuant pipeline to identify and quantify transcript isoforms based on Nanopore long-read data
8 stars 1 forks source link

polyA file #1

Closed mei-du closed 3 years ago

mei-du commented 3 years ago

Hi @czhu, how was the polyA file made/obtained? I intend to provide my own genome files. Thanks

czhu commented 3 years ago

Hi @mei-du, we scanned the human genome with a window size of 20bp for consecutive A/T (at least 5) and the window has minimum 60% of A/T. We exclude any hits that fall within 200bp window of polyA defined by GENCODE. Hope this helps