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PRADA | Pipeline for RNA sequencing data analysis

Processes large numbers of raw RNA-sequencing datasets. PRADA works on paired-end sequencing data and is based on: (1) its mapping to both transcriptomic and genome; or (2) its comprehensive repertoire of output information from the incorporated modules. It enables users to compute multiple analytical metrics. It provides different types of information from raw paired-end RNA-seq data: gene expression levels, quality metrics, detection of unsupervised and supervised fusion transcripts, detection of intragenic fusion variants, homology scores and fusion frame classification.

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PRADA forum

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PRADA classification

PRADA specifications

Unique identifier:
OMICS_01408
Interface:
Command line interface
Operating system:
Unix/Linux
Computer skills:
Advanced
Maintained:
Yes
Software type:
Pipeline/Workflow
Restrictions to use:
None
License:
MIT License
Stability:
Stable

PRADA distribution

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PRADA support

Maintainers

  • Gad Getz <>
  • Roel Verhaak <>

Credits

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Publications

Institution(s)

Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA; The Eli and Edythe L Broad Institute of Harvard University and MIT, Cambridge, MA, USA; Department of Pathology, Memorial Sloan-Kettering Cancer Center, New York, NY, USA

Funding source(s)

Supported in part by NCI grant number CA143883/Chapman Foundation/Dell Foundation.

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