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By Jackman S., Birol I., Last update 1494698999
All tools Run in Terminal

KAligner description

Kaligner aligns the sequences of the files QUERY to those of TARGET. All perfect matches of at least k bases will be found.

Parent program: abyss

ABySS is a de novo sequencing assembler developed for short reads of large genomes. It has novel scaffolding algorithm capable of assembling very large genomes including human genomes (>3.5 billion paired-end reads). ABySS algorithm eliminates ambiguities in the scaffold graph and identifies contigs that are assembled into scaffolds.The assembly runs in three stages: assemble contigs without paired-end information, align the paired-end reads to the initial assembly, and merge contigs joined by paired-end information.