ampliMethProfiler statistics

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ampliMethProfiler specifications

Information


Unique identifier OMICS_13845
Name ampliMethProfiler
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Input data Requires three types of input files: a file containing the reads from the sequencer in FASTA format, a comma-separated file containing information on the sequenced regions, and a FASTA file containing the reference sequences of the analyzed regions.
Input format FASTA
Operating system Unix/Linux, Mac OS
Programming languages Python
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.1
Stability Beta
Requirements
Biom, QIIME, BioPython, Blast
Maintained Yes

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Publication for ampliMethProfiler

ampliMethProfiler in publication

PMCID: 5387920
PMID: 28398335
DOI: 10.1038/sdata.2017.43

[…] into that of the (+) strand and pooled together with the original (+) strand. the four files analysed correspond to the (+) strand., to analyse the methylation status of each amplicon, we used the amplimethprofiler specifically designed for deep-targeted bisulfite amplicon sequencing of multiple genomic regions. this pipeline is freely available […]


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ampliMethProfiler institution(s)
Istituto Nazionale di Fisica Nucleare, Sezione di Napoli, Naples, Italy; Dipartimento di Medicina Molecolare e Biotecnologie Mediche, Università degli Studi di Napoli "Federico II", Naples, Italy; Istituto di Endocrinologia ed Oncologia Sperimentale (IEOS) "Gaetano Salvatore", Consiglio Nazionale delle Ricerche CNR, Naples, Italy; Dipartimento di Fisica, Università degli Studi di Napoli "Federico II", Naples, Italy
ampliMethProfiler funding source(s)
This work was supported by the Doctorate of Computational Biology and Bioinformatics, University “Federico II”, Naples and partially supported by the Epigenomic Flagship Project-Epigen, Research Council of Italy (CNR); and the POR Campania FSE 2007–2013, Project CREME.

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