search

EMBL-Hentze-group / DEWSeq

R/Bioconductor package for e/iCLIP data analysis
5 stars 1 forks source link

How to set the -e/--mate parameter for non-strand-specific or single-end sequencing libraries? #13

Closed luckyvivi closed 4 months ago

luckyvivi commented 4 months ago

Hi,

I have a question regarding the -e/--mate parameter for the extract command.

Sometimes sequencing library is either non-strand-specific or single-end sequencing. According to the documentation, the -e/--mate parameter is used to select the read/mate to extract the crosslink sites from paired-end sequencing, with choices 1 or 2 (1 for the first mate and 2 for the second mate). image Could you please provide guidance on how to set this parameter for:

Non-strand-specific libraries Single-end sequencing libraries

Thank you for your help!

Best regards,

sudeepsahadevan commented 4 months ago

Closing this issue. Duplicate of htseq-clip issue 11