Pipeliner provides access to some of the NGS data analysis pipelines used by CCBR on the NIH Biowulf Linux Cluster. Pipeliner allows the user to select a set of data files, such as fastq sequence reads, and process them via a sequence of programs that constitute an analysis ‘pipeline’ to reach an endpoint, such as a
- List of differentially expressed genes (RNA-Seq)
- List of mutations with accompanying annotations (Exome-Seq)
- Gene expression in single cells (sc-RNA-Seq)
The program also provides a graphical interface in which pipeline options are configured using pulldowns and text entry fields. Once configured, the pipeline is executed on the Biowulf cluster.
More information about Pipeliner can be found at https://ccbr.github.io/Pipeliner/.