SPEAQeasy: a scalable pipeline for expression analysis and quantification for R/bioconductor-powered RNA-seq analyses.

Nicholas J EaglesEmily E BurkeJacob LeonardBrianna K BarryJoshua M StolzLouise HuukiBaDoi N PhanVioleta Larios SerratoEverardo Gutiérrez-MillánIsrael Aguilar-OrdoñezAndrew E JaffeLeonardo Collado-Torres

Published in: BMC bioinformatics (2021)

SPEAQeasy is user-friendly and lowers the computational-domain entry barrier for biologists and clinicians to RNA-seq data processing as the main input file is a table with sample names and their corresponding FASTQ files. The goal is to provide a flexible pipeline that is immediately usable by researchers, regardless of their technical background or computing environment.

Keyphrases

rna seq
single cell
electronic health record
palliative care
big data
machine learning
low cost
data analysis
solid state