bioconductorNotes

This is Github repo containing notes / usage examples for various R/Bioconductor packages.

Analysis of Gene Expression data

• limma - Analysis of gene expression data from microarrays or RNA-Seq platform technologies

Analysis of single cell RNA-Seq data

See scRNASeq folder

Analysis of DNA methylation data

• minfi - Tools for analyzing and visualizing Illumina's 450k array data

Other

• GEOquery - Accesses data on GEO

• epivizr - Interactive visualization of genomic data in a browser. Supports Bioconductor data structures such as GenomicRanges and SummarizedExperiments