SOAP: short oligonucleotide alignment program

Li, Ruiqiang, Li, Yingrui, Kristiansen, Karsten and Wang, Jun (2008) SOAP: short oligonucleotide alignment program. Bioinformatics, 24 5: 713-714. doi:10.1093/bioinformatics/btn025


Author Li, Ruiqiang
Li, Yingrui
Kristiansen, Karsten
Wang, Jun
Title SOAP: short oligonucleotide alignment program
Journal name Bioinformatics   Check publisher's open access policy
ISSN 1367-4803
1367-4811
Publication date 2008-03-01
Sub-type Letter to editor, brief commentary or brief communication
DOI 10.1093/bioinformatics/btn025
Open Access Status Not yet assessed
Volume 24
Issue 5
Start page 713
End page 714
Total pages 2
Place of publication Oxford, United Kingdom
Publisher Oxford University Press
Language eng
Abstract We have developed a program SOAP for efficient gapped and ungapped alignment of short oligonucleotides onto reference sequences. The program is designed to handle the huge amounts of short reads generated by parallel sequencing using the new generation Illumina-Solexa sequencing technology. SOAP is compatible with numerous applications, including single-read or pair-end resequencing, small RNA discovery and mRNA tag sequence mapping. SOAP is a command-driven program, which supports multi-threaded parallel computing, and has a batch module for multiple query sets.
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Non-UQ

Document type: Journal Article
Sub-type: Letter to editor, brief commentary or brief communication
Collection: Institute for Molecular Bioscience - Publications
 
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