bcbioRNASeq: R package for bcbio RNA-seq analysis

作者：Michael J. Steinbaugh, Lorena Pantano, Rory D. Kirchner, Víctor Barrera, Brad Chapman, Mary E. Piper, Meeta Mistry, Radhika S. Khetani, Kayleigh D. Rutherford, Oliver Hofmann, John N. Hutchinson, Shannan Ho Sui · 发表于：F1000Research · 年份：2018 · DOI：10.12688/f1000research.12093.2 · 被引用次数：35 · 研究领域：Genomics and Phylogenetic Studies、RNA modifications and cancer、Molecular Biology Techniques and Applications

RNA-seq analysis involves multiple steps, from processing raw sequencing data to identifying, organizing, annotating, and reporting differentially expressed genes. bcbio is an open source, community-maintained framework providing automated and scalable RNA-seq methods for identifying gene abundance counts. We have developed bcbioRNASeq, a Bioconductor package that provides ready-to-render templates, objects and wrapper functions to post-process bcbio RNA sequencing output data. bcbioRNASeq helps automate the generation of high-level RNA-seq reports, facilitating the quality control analyses, identification of differentially expressed genes and functional enrichment analyses.