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Tally

A package to deduplicate sequence fragments. Tally removes redundancy from sequence files by collapsing identicle reads to a single entry while recording the number of instances of each. It can also tally paired-end data or re-pair independently processed paired-end files. It minimises memory usage by compressing sequences and using compact memory allocation techniques.

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Tally classification

Tally specifications

Unique identifier:
OMICS_02100
Interface:
Command line interface
Input format:
GZIP of FASTQ, FASTA
Operating system:
Unix/Linux, Mac OS, Windows
License:
GNU General Public License version 3.0
Stability:
Stable
Maintained:
Yes
Software type:
Package/Module
Restrictions to use:
None
Output format:
GZIP of FASTQ, FASTA
Programming languages:
C
Computer skills:
Advanced
Source code URL:
http://wwwdev.ebi.ac.uk/enright-dev/kraken/reaper/src/

Tally distribution

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Tally support

Documentation

Credits

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Publications

Institution(s)

European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK; National Laboratory of Genomics for Biodiversity, Cinvestav, Irapuato, Mexico

Funding source(s)

Early versions of this software were funded by the EU FP7 (SIROCCO, LSHG-CT-2006-037900) and later versions and development have been supported by BBSRC UK (BB/01589X/1).

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.