Difference between revisions of "BLAST+ HowTo"
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TaejoonKwon (Talk | contribs) (→See also) |
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* 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 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. | * 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 = | = Make sequence database = | ||
Latest revision as of 13:02, 17 May 2014
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
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>
Run sequence search
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.
