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The purpose of DressUp is to create an end-to-end RNA seq pipeline in which all of the steps of analyzing data from an Illumina sequencer is done in one step in an HPC environment. RNA seq programs included are TopHat, CuffLinks, CuffDiff, CuffMerge, FastQC, and trimming using the FastX toolkit.
DressUp facilitates RNA seq programs by streamlining various packages into a single script. That script executes the RNA seq programs on a batch cluster system. Upon execution of the script, jobs are submitted to the cluster depending on attributes set up in the configuration file.
Program options can be modified in the main script "DressUp", and PBS options can be modified from the HeaderFiles directory.
Features
- CuffMerge, FastX trimming, and FastQC can be turned on or off from configuration file
- Separate PBS scripts for each component of the pipeline available
- Multiple RNA seq programs performed in one step
- Ability to adjust PBS options for each program
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Categories
Bio-InformaticsFollow Dress Up RNA seq
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