cutPrimers statistics

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Associated diseases

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cutPrimers specifications

Information


Unique identifier OMICS_19631
Name cutPrimers
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Four files with primer sequences located on the 50 -end and 30 -end of R1 and R2 reads, respectively.
Input format FASTA
Operating system Unix/Linux, Mac OS, Windows
Programming languages Python
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.0
Stability Stable
Requirements
Biopython, regex, argparse
Source code URL https://codeload.github.com/aakechin/cutPrimers/tar.gz/v1.0
Maintained Yes

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Maintainer


  • person_outline Andrey Kechin <>

Publication for cutPrimers

cutPrimers in publication

PMCID: 5029162
PMID: 26859772
DOI: 10.1038/ismej.2015.249

[…] for platform-independent community comparisons, v4 16s rrna regions were retrieved by aligning v4 primer sequences (515 f, 806 r) to phylotag sequences (msa.sh) and selecting intervening sequences (cutprimers.sh). v4 sequences were screened for a length of 232±60 bp (3 s.e.m. v4 itag length) (reformat.sh), resulting in 195 036 sequences present in both fl and v4 sequence pools […]


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cutPrimers institution(s)
Institute of Chemical Biology and Fundamental Medicine SB RAS, Novosibirsk, Russia; Novosivirsk State University, Novosibirsk, Russia; geneXplain GmbH, Wolfenbuettel, Germany; biosoft.ru, Novosibirsk, Russia
cutPrimers funding source(s)
Partly supported by a grant of Skolkovo foundation ‘‘Information platform for biomedical research.’ and under State-funded budget project (VI.62.2.2, 0309-2016-0007) ‘‘Development of the methods of personalized medicine.’’

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