stacks

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Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform. Stacks was developed to work with restriction enzyme-based data, such as RAD-seq, for the purpose of building genetic maps and conducting population genomics and phylogeography.

disco

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This software is Open Source. Disco is a multi threaded and multiprocess distributed memory overlap-layout-consensus (OLC) metagenome assembler