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Last pushed: 7 months ago
Short Description
OMICtools: version 2017-01-14
Full Description

Aligns both single- and paired-end reads as short as 14 nt and of arbitrarily long length. GSNAP can detect short- and long-distance splicing, including interchromosomal splicing, in individual reads, using probabilistic models or a database of known splice sites. GSNAP also permits SNP-tolerant alignment to a reference space of all possible combinations of major and minor alleles, and can align reads from bisulfite-treated DNA for the study of methylation state.

Software type:
Package
Restrictions to use:
None
Output format:
SAM
Programming languages:
C, Perl
Interface:
Command line interface
Input format:
FASTQ
Operating system:
Unix/Linux
Computer skills:
Advanced

Fast and SNP-tolerant detection of complex variants and splicing in short reads. Published in: 2010 PMID: 20147302 DOI: 10.1093/bioinformatics/btq057

  • DOCKER CREATOR and MAINTAINER:
    Emilie Drouineau: emilie.drouineau@i2bc.paris-saclay.fr

  • For any question, please contact:
    eBio: plt-ebio@i2bc.paris-saclay.fr

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Owner
ebio

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