For a more comprehensive and updated information on this, please see Post 32.
Read all the way to the end of that post.
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You can use Jalview to easily check for duplicates and remove them if any.
1. Download and install Jalview on your home system from
http://www.jalview.org/download.html
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2. Run Jalview and close all example windows
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3. Load your fasta file to Jalview
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4. Remove duplicates:
- Select all sequence
- Go ‘Edit’ to uncheck the pad gaps function.
- In ‘Edit’, select ‘Remove all gaps’
- After that select ‘Remove redundancy’
- At the “redundancy threshold selection” dialog box, set the threshold value to 100, click ‘Remove’.
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5. Saving the unique fasta file and you are done!
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Content by: Asif M. Khan & Sye Bee
Posted by: Sye Bee
Edited by: Asif M. Khan
great, I like it!
ReplyDeleteThank ya for the help
ReplyDeleteHere is my free program on Github **Sequence database curator**
ReplyDelete(https://github.com/Eslam-Samir-Ragab/Sequence-database-curator)
It is a very fast program and it can deal with:
1. Nucleotide sequences
2. Protein sequences
It can work under Operating systems:
1. Windows
2. Mac
3. Linux
It also works for:
1. Fasta format
2. Fastq format
Best Regards