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High througput BLAST-analysis

Is there a simple and automated way to do a BLAST analysis of 900 genes to find clusters... or should I make a 900x900 table and compare each gene individually with each other?

Thank you for your help!

gene blast sequence sequencing next-gen
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updated by Sishuo Wang 23 • | written by noemichael 0

2 answers

To cluster sequences, I'd consider using CD-HIT rather than BLAST.

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written by Neilfws 4.9K

OrthoMCL is another good choice in addition to CD-HIT as mentioned by Neilfws. Alternatively, you might want to use SiLiX which is very fast and could be used for both nucleotide sequences or amino acid sequences.

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written by Sishuo Wang 23

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