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KDBio
Tool for Alignment of Pyrosequencing Reads

TAPyR is an efficient Tool for the local Alignment of Pyrosequencing Reads produced by the GS FLX (454) Genome Analyzer technology against a reference genome sequence. Our approach explores the characteristics of the data in re-sequencing applications and uses state of the art BWT-based indexing techniques combined with a flexible seed-based approach, leading to a fast and accurate algorithm which needs very little user parameterization.

Although initially developed having this specific technology in mind, this software performs equally well on any other platform that can return its sequencing reads in the FASTA, FASTQ or SFF formats, including Illumina, Ion Torrent and Pacific Biosciences technologies.