extracting unaligned contigs from the blast output

Question

[seta]

Hi everybody,

Could you please help me how to extract unaligned contigs from the blast output (tabular format)?

Thanks a a lot

Answer 1

[GouthamAtla]

Extract Unmapped Reads From Blast

http://pythonforbiologists.com/index.php/manipulating-blast-output-with-command-line-tools/

[seta]

Thanks, I'll try them.

[GouthamAtla]

It's just column 2 (Subject) which should be empty I guess. something like, if $2==Empty, print $1.