Resources

Software

• CTK: CLIP Tool Kit, previously known as CIMS (documentation, download, user group)
• mCarts: hidden Markov model (HMM) based methods to predict clusters RNA motif sites (documentation, download)
• mCross: modeling RBP binding specificity by registering protein-RNA crosslink sites (site)
• 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)
• Splicescope: prediction of neuronal maturation stages using splicing profile (site)
• Quantas: A pipeline to analyze alternative splicing using RNA-Seq (documentation,download)

Datasets

• Cortex AS: Cortex_AS|A database of known and novel AS events in the brain
• Autism D-score: Prioritization of autism risk genes using D-score derived from CSN cell type-specific gene expression.