LieberInstitute/TREG: Tools for finding Total RNA Expression Genes in single nucleus RNA-seq data

RNA abundance and cell size parameters could improve RNA-seq deconvolution algorithms to more accurately estimate cell type proportions given the different cell type transcription activity levels. A Total RNA Expression Gene (TREG) can facilitate estimating total RNA content using single molecule fluorescent in situ hybridization (smFISH). We developed a data-driven approach using a measure of expression invariance to find candidate TREGs in postmortem human brain single nucleus RNA-seq. This R package implements the method for identifying candidate TREGs from snRNA-seq data.

Getting started

Package details

Bioconductor views GeneExpression RNASeq Sequencing SingleCell Software Transcription Transcriptomics
Maintainer
LicenseArtistic-2.0
Version1.9.0
URL https://github.com/LieberInstitute/TREG http://research.libd.org/TREG/
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("LieberInstitute/TREG")
LieberInstitute/TREG documentation built on May 7, 2024, 3:49 p.m.