Pegasus specifications

Information


Unique identifier OMICS_05584
Name Pegasus
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java, Perl, Python, Shell (Bash)
Computer skills Advanced
Stability Stable
Requirements
Numpy, Pandas, SciKit-learn
Maintained Yes

Versioning


No version available

Documentation


Maintainer


  • person_outline Raul Rabadan

Publication for Pegasus

Pegasus citation

library_books

Discovering and understanding oncogenic gene fusions through data intensive computational approaches

2016
Nucleic Acids Res
PMCID: 4889949
PMID: 27105842
DOI: 10.1093/nar/gkw282

[…] literature (,). Interestingly, certain lost features, like protein interaction interfaces, were more informative than the retained features.The most recent method for nominating fusion drivers is the Pegasus pipeline (), which emphasizes transcript sequence reconstruction and domain annotation. Pegasus extends the Oncofuse domain analysis by considering reading frame conservation and all possible […]

Pegasus institution(s)
Department of Biomedical Informatics, Columbia University, New York, NY, USA; Center for Computational Biology and Bioinformatics, Columbia University, New York, NY, USA; Department of Control and Computer Engineering, Politecnico di Torino, Torino, Italy; Department of Pathology, Center for Experimental Research and Medical Studies, Laboratory of Functional Genomics, University of Torino, Torino, Italy; Institute for Cancer Genetics, Columbia University Medical Center, New York, NY, USA; Department of Applied Physics and Applied Mathematics, The Fu Foundation School for Engineering and Applied Sciences, Columbia University, New York, NY, USA; Institute for Data Sciences and Engineering, Columbia University, New York, NY, USA
Pegasus funding source(s)
This project is supported by U54 CA121852, R01 CA179044-01A1, R01 CA164152-01, Stewart Trust Foundation and The Italian Association for Cancer Research (AIRC) Special Program in Clinical Molecular Oncology (5x1000 No. 10007, Milan, Italy), Regione Piemonte (ONCOPROT, CIPE 25/2005), ImmOnc (Innovative approaches to boost the immune responses, Programma Operativo Regionale, Piattaforme Innovative BIO F.E.S.R. 2007/13, Asse 1 ‘Ricerca e innovazione’ della LR 34/2004), and the Oncology Program of Compagnia di San Paolo (Turin, Italy).

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