Package: wnpp Severity: wishlist Subject: ITP: broad-catch -- design sets of primers to identify genomes Package: wnpp Owner: Steffen Moeller <moel...@debian.org> Severity: wishlist
* Package name : broad-catch Version : 1.4.0 Upstream Author : Hayden Metsky <hay...@mit.edu> * URL : https://github.com/broadinstitute/catch * License : MIT Programming Lang: Python Description : design sets of primers to identify genomes CATCH (Compact Aggregation of Targets for Comprehensive Hybridization) is a Python package for designing probe sets to use for nucleic acid capture of diverse sequence. . * Comprehensive coverage: CATCH accepts any collection of unaligned sequences — typically whole genomes of all known genetic diversity of one or more microbial species. It designs oligo sequences that guarantee coverage of this diversity, enabling rapid design of exhaustive probe sets for customizable targets. * Compact designs: CATCH can design with a specified constraint on the number of oligos (e.g., array size). It searches a space of probe sets, which may pool many species, to find an optimal design. This allows its designs to scale well with known genetic diversity, and also supports cost-effective applications. * Flexibility: CATCH supports applications beyond whole genome enrichment, such as differential identification of species. It allows blacklisting sequence from the design (e.g., background in microbial enrichment), supports customized models of hybridization, enables weighting the sensitivity for different species, and more. Remark: This package is maintained by Debian Med Packaging Team at https://salsa.debian.org/med-team/catch