custom_params

[yurim...@gmail.com]

Hi,

I tried filtering and trimming using prinseq with the options below.

-trim_tail_left 5 -trim_tail_right 5 -ns_max_n 5 -no_qual_header -trim_qual_type min -trim_qual_left 30 -trim_qual_right 30 -trim_qual_window 10 -min_len 50

The results still included sequences with AT repeats (x 25), so tried -custom_params "AT 25" against the results. However, "sequences filtered by sepcific parameters" was none and actually included AT repeats.

Could I have your suggestion if there was something wrong or if I can try another way to filter out ATs?

Thank you,
Yuri