Question

Redundancy removing in sequences

0

Entering edit mode

3.5 years ago

Sashinika • 0

How does remove redundancy using derep.py code in sequences, in Bio-Linux and Ubuntu?

sequencing sequence • 891 views

ADD COMMENT • link updated 3.5 years ago by brian.fristensky ▴ 460 • written 3.5 years ago by Sashinika • 0

0

Entering edit mode

Read this and edit your question to show us what effort you've invested: [[ Please read before posting a question ::: How To Ask A Good Question ]]

ADD REPLY • link 3.5 years ago by Ram 43k

score 3 · Accepted Answer · 2020-11-01

3

Entering edit mode

3.5 years ago

Mensur Dlakic ★ 27k

There are numerous software tools for this problem. None of them is a standard or so much better than the others that one would definitely want to try it.

By the way, there are numerous links on the right side of this page that probably answer the poster's question.

ADD COMMENT • link 3.5 years ago by Mensur Dlakic ★ 27k

0

Entering edit mode

thank you ver much. I used sRNA tool to remove the redundancy

ADD REPLY • link 3.2 years ago by Sashinika • 0

0

Entering edit mode

If an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accepted. You can accept more than one answer if they all work. If an answer was not really helpful or did not work, provide detailed feedback so others know not to use that answer.

Upvote|Bookmark|Accept

ADD REPLY • link 3.2 years ago by Ram 43k

score 2 · Accepted Answer · 2020-11-01

If you're using Linux or MacOSX you definitely want to try the BIRCH system.

See the BIRCH Multiple sequence alignments tutorial which shows how to eliminate redundant sequences using CD-HIT.

You can learn more about BIRCH on our YouTube channel at https://www.youtube.com/channel/UC9_3TfH3sjE0YdToVMChq-w?view_as=public