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- Software type:
- Restrictions to use:
- Input format:
- Programming languages:
- Computer skills:
- Command line interface
- 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.
- Operating system:
- Unix/Linux, Mac OS
- GNU General Public License version 3.0
- Biom v. 2.1.5+, QIIME v. 1.9+, Biopython v. 1.65+, Blast v. 2.2.25+.
(Scala et al., 2016) ampliMethProfiler: a pipeline for the analysis of CpG methylation profiles of targeted deep bisulfite sequenced amplicons. BMC Bioinformatics.
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
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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