NGSphy specifications


Unique identifier OMICS_22076
Name NGSphy
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Input data A NGSPhy settings file, an INDELible control file and a Newick file with single gene tree accompanied by optional files such as ancestral sequence file and reference allele file (For single gene-tree scenario) or a NGSPhy settings file, a SimPhy output accompanied by an optional reference allele file (for species tree scenario).
Input format NEWICK/FASTA
Output data NGS reads, read counts, sequence alignments, coverage variation, log files and bash scripts.
Operating system Unix/Linux
Programming languages Python, Shell (Bash)
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.0.8
Stability Stable
DendroPy, INDELible, ART, SimPhy
Source code URL
Maintained Yes




No version available


  • person_outline Merly Escalona

Additional information

Publication for NGSphy

NGSphy institution(s)
Department of Biochemistry, Genetics and Immunology, University of Vigo, Vigo, Spain; Biomedical Research Center (CINBIO), University of Vigo, Vigo, Spain; Galicia Sur Health Research Institute, Vigo, Spain.
NGSphy funding source(s)
Supported by the Spanish government (research grants BFU2012-33038 and BFU-BFU2015-63774-P); FPI graduate fellowship BES-2013-067181 and Juan de la Cierva postdoctoral fellowship FPDI-2013-17503; and the European Research COUncil (ERC-617457-PHYLOCANCER).

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