Short Oligonucleotide Analysis Package

Short Oligonucleotide Analysis Package (SOAP) is a bioinformatics package used for the assembly and analysis of DNA sequences. SOAP is particularly well-suited for Illumina next generation sequences. There are 5 members in this package :

• SOAPaligner: A new alignment tool from SOAP v1.
• SOAPdenovo: A short reads do novo assembler.
• SOAPsnp: An accurate consensus sequence builder.
• SOAPsv: A structural variation scanner.
• SOAPindel: A tool to find insertion and deletion specially for re-sequence technology.

All programs in the SOAP package may be used free of charge.

SOAPdenovo, a program in the SOAP package, was used to assemble the Panda genome entirely from short Illumina next generation sequences [1].

SOAP v1

SOAP v1 is the previous version of SOAPaligner, and it is only a sequence alignment tool while SOAP (SOAP v2) is a program package that contains 5 members as above .

See also

• genomics
• genome sequencing
• genome assembly
• bioinformatics

External links

• http://soap.genomics.org.cn
• http://soap.genomics.org.cn/soap1
• http://bioinformatics.genomics.org.cn
• http://seqanswers.com/forums/showthread.php?t=43

Reference

• SOAP2: an improved ultrafast tool for short read alignment
• The sequence and de novo assembly of the giant panda genome