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cgpRna provides commonly used mapping and analysis tools for RNA-Seq data analysis, such as TopHat and Star. At the present time (May 2016), pipelines for mapping (with STAR), lane QC and fusion gene detection are included in this codebase.

To run pipelines with locally installed cgpRna, please follow: Use locally installed cgpRna

To use cgpRna Docker container, please follow: Use the command-line interface in the Docker container.