Hi all friends,
For trimming polyA tail from RNA-seq data using bbduk, I found two flags:
"trimpolya=10”, which trim leading or trailing sequences of at least 10 A or T and
“literal=AAAAA” along with adjusting the value of k= as needed.
“trimpolya=10”, but faced the error, seemingly, this flag is not known for the software. Regarding the second flag, “literal=AAAAA”, I’m in a doubt a bit if it should be “
literal=TTTT”, or not, please kindly clear me. Could you please also tell me what is your suggestion for k value for this trimming?