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NCBI blast
how to set it up
- 2007-04-27 installation
download from ftp://ftp.ncbi.nih.gov/blast/
get fasta formatted sequence files
create blast database, like (-p F means it's nucleotide database):
../bin/formatdb -i Arabidopsis_lyrata.main_genome.scaffolds.fasta -p F
test the blast (-m7 turns on the XML blast output):
../bin/blastall -p blastn -d Arabidopsis_lyrata.main_genome.scaffolds.fasta -i /tmpcmb-01/yuhuang/test.blast -o /tmpcmb-01/yuhuang/test.blast.out -m7
Gene Regulatory Networks Special Feature (PNAS)