BLAST+ HowTo

Download & install the program

• ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/
  • Old version: ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/

• If you download binary/executable files, executable files are available right after uncompress the file. Hereafter, '/path/to/ncbi+/' refer the directory of those files on your computer.
• If you need to compile the source code, read 'README' and/or 'INSTALL' document inside source directory after uncompress the file.

• Installation guideline from BLAST station
  • http://www.blaststation.com/freestuff/en/howtoNCBIBlastWin.html
  • http://www.blaststation.com/freestuff/en/howtoNCBIBlastMac.html

Make sequence database

For nucleotide sequence database,

$ /path/to/blast+/bin/makeblastdb -dbtype nucl <my_seq.fa> <my_db_name>

For protein sequence database,

$ /path/to/blast+/bin/makeblastdb -dbtype prot <my_seq.fa> <my_db_name>

See also

• HowTo_BLAST - How to use original(legacy) BLAST
• BLAST command line online manual
• http://blast.advbiocomp.com/ - AB-BLAST (a.k.a. wu-blast or BLAST-2.0). It claims better performance than NCBI BLAST, but you need to pay at least $320/yr if you want to use its output in your publication.

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