insightsengineering/hermes: Preprocessing, analyzing, and reporting of RNA-seq data

Provides classes and functions for quality control, filtering, normalization and differential expression analysis of pre-processed RNA-seq data. Data can be imported from `SummarizedExperiment` as well as `matrix` objects and can be annotated from BioMart. Filtering for genes without too low expression or containing required annotations, as well as filtering for samples with sufficient correlation to other samples or total number of reads is supported. The standard normalization methods including `cpm`, `rpkm` and `tpm` can be used, and `DESeq2` as well as `voom` differential expression analyses are available.

Getting started

Package details

Bioconductor views DifferentialExpression Normalization Preprocessing QualityControl RNASeq
LicenseApache License 2.0 | file LICENSE
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
insightsengineering/hermes documentation built on Jan. 3, 2023, 1:39 p.m.