SOAP: short oligonucleotide alignment program

• Published in: Bioinformatics Vol. 24; no. 5; pp. 713 - 714
• Main Authors: Li, Ruiqiang, Li, Yingrui, Kristiansen, Karsten, Wang, Jun
• Format: Journal Article
• Language: English
• Published: Oxford Oxford University Press 01.03.2008; Oxford Publishing Limited (England)
• Subjects: Biological and medical sciences; Fundamental and applied biological sciences. Psychology; General aspects; Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects); Sequence Alignment; Sequence Analysis, DNA; Sequence Homology, Amino Acid; Bioinformatics; Oligonucleotide

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...