ProTiler: An integrative pipeline for the de novo identification of essential protein domains from CRISPR/Cas9 tiling-sgRNA screens.
GuidePro: A two-layer ensemble predictor that enables the integration of multiple factors for the prioritization of sgRNAs in protein knockouts.
A GuidePro-based web application for prioritizing sgRNAs that target protein-coding genes in human, monkey and mouse genomes is also available.
MoPAC: A shiny-driven application for the analysis and visualization of CRISPR/Cas9 screens on multiple samples.
MaGeCK: A model based analysis tool for identifying important genes from CRISPR/Cas9 screens.
SSC: An online tool for predicting sgRNA activity in CRISPR applications.
CRISPR-DO: A web application for the genome-wide design and optimization of sgRNA sequences in five genomes (human, mouse, fly, worm and zebrafish)
CCAT: A ChIP-seq analysis tool based on based on a signal-noise model (very fast!)
ChIPDiff: A Hidden-Markov Model (HMM) based application for identifying differentially modified histone sites by comparing two ChIP-seq libraries.
GS2A: An analytic tool for screening genes that are associated with a set of “signature genes” from expression profiles from tumor cohorts.