RTCGAToolbox

Extra Credit builds an outline of RTCGAToolbox's docs the first time your work uses it. Until then, start at the official documentation.

• QuasR Quantify and Annotate Short Reads in R
• PSMatch Handling and Managing Peptide Spectrum Matches
• gwascat representing and modeling data in the EMBL-EBI GWAS catalog
• viper Virtual Inference of Protein-activity by Enriched Regulon analysis
• ctc Cluster and Tree Conversion.
• celda CEllular Latent Dirichlet Allocation
• SeqVarTools Tools for variant data
• csaw ChIP-Seq Analysis with Windows
• GLAD Gain and Loss Analysis of DNA
• MSstats Protein Significance Analysis in DDA, SRM and DIA for Label-free or Label-based Proteomics Experiments
• trackViewer A R/Bioconductor package with web interface for drawing elegant interactive tracks or lollipop plot to facilitate integrated analysis of mul
• annotatr Annotation of Genomic Regions to Genomic Annotations