Editting M-COFFEE results

Question

[cjy8709]

Hi folks

I was wondering if people had any experience with M-COFFEE.

I'm planning to align thousands of MSAs and was planning to use the output of M-COFFEE to eliminate regions with bad alignment.

Seems like M-COFFEE outputs either a html or clustalw format and I was wondering if there was any good way to filter for example sequences with scores less then 80?

Thanks for reading!

Answer 1

[cjy8709]

Seems like I'm answering my own question but for people who would want to know in the future it seems like you can use the same method as T-COFFEE to filter the results.

http://www.tcoffee.org/Documentation/t_coffee/t_coffee_tutorial.htm#_Toc235985476

http://www.tcoffee.org/Documentation/t_coffee/t_coffee_tutorial.htm#_Toc235985573