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changing header name in fasta file

could you please help me to do this;

now I have head name like this:

>1
AAATAAAGTAACT
>2
ATCCCCTCCCTTA

and I need to edit it to

>contig_1 species name 
AAATAAAGTAACV
>contig_2 species name 
ATCCCCTCCCCC

Note; Can you recommend cat, grep, sed command, its will be great great for me.

Thank you so much..

sequence genome
• 3,086 views • link
updated by Hugo Hugo • written by pong.singchat • pong.singchat

Thank you so much could you please give me the command line?

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written by pong.singchat • pong.singchat

Try something. If you get stuck, or get an error - post the output and error message.

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written by st.ph.n st.ph.n

This is part of a long-running series called "google your own title".

There are so many good links I can't even choose one.

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written by h.mon h.mon

If you know a bit of python you can give a try to Biopython SeqIO module.

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written by grant.hovhannisyan grant.hovhannisyan

1 answer

Dear colleague,

I will recommend you to try SEDA. The "Rename header" option (explained in section 3.8 of the user manual) allows you to do exactly what you need.

With best regards,

Hugo.

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updated by Ram Ram • written by Hugo Hugo

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