Resources

Software

• CTK: CLIP Tool Kit (documentation, download)
  • This package is previously known as CIMS
• mCarts: hidden Markov model (HMM) based methods to predict clusters RNA motif sites (documentation, download)
• mRIN: direct assessment of mRNA integrity from RNA-Seq data (documentation)
• NDDcluster: nonparametric "shape free" clustering algorithm based on normalized density derivatives (site)
• OLego: A tool for fast and accurate mapping of exon-junction reads (site, documentation, download)
• Quantas: A pipeline to analyze alternative splicing using RNA-Seq (documentation,download)

Datasets

• Cortex AS: A database of known and novel AS events in the brain