RNA2DNAlign specifications

Information


Unique identifier OMICS_12823
Name RNA2DNAlign
Software type Framework/Library
Interface Command line interface, Graphical user interface
Restrictions to use None
Input data RNA and DNA sequencing datasets
Input format VCF, BAM
Operating system Unix/Linux
Programming languages Python
Computer skills Advanced
Stability Stable
Requirements CIRCOS, R-Studio, Integrative Genome Viewer
Maintained Yes

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Documentation


Maintainer


  • person_outline Anelia Horvath <>

RNA2DNAlign article

RNA2DNAlign citation

2018
PMCID: 5956099

[…] data commons data portal (https://portal.gdc.cancer.gov/) and processed downstream through an in-house pipeline. the rna and dna alignments, together with the variant lists were processed through rna2dnalign12. rna2dnalign produced variant and reference sequencing reads counts for all the variant positions in all four datasets (normal exome, normal transcriptome, tumor exome and tumor […]

RNA2DNAlign institution(s)
McCormick Genomics and Proteomics Center, Department of Biochemistry and Molecular Medicine, The George Washington University, Washington D.C., MD, USA; University of Massachusetts Medical School, Graduate School of Biomedical Sciences, Program in Bioinformatics and Integrative Biology, Worcester, MA, USA; Department of Biochemistry and Molecular & Cellular Biology, Georgetown University, Washington D.C., MD, USA; Department of Computer Science, School of Engineering and applied Science, The George Washington University, Washington D.C., MD, USA; Department of Pharmacology and Physiology, The George Washington University, Washington D.C., MD, USA; Department of Mathematics, College of Engineering, Mathematics and Physical Sciences & EPSRC Centre for Predictive Modelling in Healthcare, University of Exeter, Exeter, UK
RNA2DNAlign funding source(s)
McCormick Genomic and Proteomic Center (MGPC), GWU; NIH National Center for Advancing Translational Sciences [UL1TR000075]; Clinical and Translational Science Institute at Children's National Medical Center [CTSI-CN]; Katzen Innovative Cancer Research Pilot Grant Program [RG0982]

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