How to delete spaces from fasta file IDs

Question

[Paula]

Hi All!

I need to delete the blank spaces between words in the headers from my fasta file.

Example

Input:

> Proteobacteria;_1 # 52 # 312 # 1 # ID=1_1;partial=01;start

Output:

>Proteobacteria;_1#52#312#1# ID=1_1;partial=01;start

Thanks a lot!

Answer 1

[Joe]

sed -i 's/\ //g' file.fasta

Your example output leaves a space in still. I've assumed that's a typo based on your request.

[Hugo]

You can use SEDA (https://www.sing-group.org/seda/). The "Rename header / Replace word" operation (https://www.sing-group.org/seda/manual/operations.html#replace-word) allows to do this.