Wrapping up BLAST and other applications for use on Unix clusters

被引：20

作者：

Hokamp, K ^{[1
]}

Shields, DC

Wolfe, KH

Caffrey, DR

机构：

[1] Univ Dublin Trinity Coll, Dept Genet, Dublin 2, Ireland

[2] Royal Coll Surgeons Ireland, Dept Clin Pharmacol, Dublin 2, Ireland

来源：

BIOINFORMATICS | 2003年 / 19卷 / 03期

关键词：

D O I：

10.1093/bioinformatics/btg007

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

We have developed two programs that speed up common bioinformatic applications by spreading them across a UNIX cluster(1) BLAST.pm, a new module for the 'MOLLUSC' package. (2) WRAPID, a simple tool for parallelizing large numbers of small instances of programs such as BLAST, FASTA and CLUSTALW.

引用

页码：441 / 442

页数：2

共 8 条

[1] Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].

Altschul, SF ;

Madden, TL ;

Schaffer, AA ;

Zhang, JH ;

Zhang, Z ;

Miller, W ;

Lipman, DJ .

NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402

[2] Assessing sequence comparison methods with reliable structurally identified distant evolutionary relationships [J].

Brenner, SE ;

Chothia, C ;

Hubbard, TJP .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1998, 95 (11) :6073-6078

[3] BeoBLAST: Distributed BLAST and PSI-BLAST on a beowulf cluster [J].

Grant, JD ;

Dunbrack, RL ;

Manion, FJ ;

Ochs, MF .

BIOINFORMATICS, 2002, 18 (05) :765-766

[4]

HENDERSON RL, 1995, LECT NOTES COMPUTER, V949, P337

[5]

JONGENEEL V, 1997, EMBNET NEWS, V4, P3

[6]

LUTHY R, 1994, PROTEIN SCI, V3, P139

[7]

Pearson W R, 2000, Methods Mol Biol, V132, P185

[8]

ZHOU S, 1992, P WORKSH CLUS COMP

← 1 →