cbligaard/RNABC: RNA-seq based breast cancer subtyping using the CITBCMST scheme

The RNABC pipeline is used for data processing in “Using microarray-based subtyping methods for breast cancer in the era of high-throughput RNA sequencing” by Pedersen C. B., Nielsen, F. C., Rossing, M., and Olsen, L. R., 2018. The steps include running FastQC for quality control, kallisto for mapping and processing by quantile normalization and batch correction. The last step is classification at sample-level using the CITBCMST scheme by Guedj et al. 2012.

Getting started

Package details

Bioconductor views citbcmst preprocessCore scater sva
URL http://github.com/cbligaard/RNABC
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
cbligaard/RNABC documentation built on Sept. 7, 2018, 1:55 a.m.