Research resouces

Bioinformatics pipelines

github.com/dremellab

[circularRNA detection & quantitation pipeline]

coming soon!

  • Input data: Illumina short-read sequencing data (PE, SE)

  • Adapted for use with small, nonstandard genomes, e.g. viruses

  • Uses CIRCExplorer2, CIRI2 and many other tools in parallel to call and quantify back splice junctions

[High-throughput Alignment and RNA Output Level Detection]

coming soon!

  • Input data: Illumina short-read sequencing data (PE, SE)

  • Designed to be versatile and facilitate analysis of data from multi-organism (infected) samples

  • Uses RNA STAR paired with EdgeR or DeSeq2 for differential gene expression analysis