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A compilation and categorization of next-generation sequencing resources

AGILE - AliGnIng Long rEads

Tool nameAGILE - AliGnIng Long rEads
URLhttp://www.ece.northwestern.edu/~smi539/agile.html
Important features1. It maps roche 454 reads with read length greater than 200. 2. The tool allows large no. of mismatches and insertions/ deletions. 3. It can handle large datasets. 4. It maps approximately 1.1 million reads of length 500 each to a reference human genome per hour.
CitationsMisra S, Agrawal A, Liao WK, Choudhary A. Anatomy of a hash-based long read sequence mapping algorithm for next generation DNA sequencing. Bioinformatics.2011 Jan 15;27(2):189-95. Epub 2010 Nov 18. PubMed PMID: 21088030.
Year of publication2011
Rank by usage frequency100
Comments
FunctionAlignment/Mapping
CategoryFree, Downloadable
License
Status
Input file formatFASTA
Output file formatpsl, pslx, axt, maf, sim4, wublast, blast, blast 8, blast 9
Operating systemLinux 64 bit
Operating language
PlatformRoche 454
Maintained byNorthwestern University, Chicago
Downloadable file format
Submission file format

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