compbiomed/scuff: Single Cell RNA-Seq UMI Filtering Facilitator (scruff)
Version 0.99.33

A pipeline which processes single cell RNA-seq (scRNA-seq) reads from CEL-seq and CEL-seq2 protocols. Demultiplex scRNA-seq FASTQ files, align reads to reference genome using Rsubread, and generate UMI filtered count matrix. Also provide visualizations of read alignments and pre- and post-alignment QC metrics.

Getting started

Package details

Bioconductor views Alignment Preprocessing QualityControl RNASeq Sequencing SingleCell Software Technology Visualization WorkflowStep
Maintainer
LicenseMIT + file LICENSE
Version0.99.33
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("devtools")
library(devtools)
install_github("compbiomed/scuff")
compbiomed/scuff documentation built on Aug. 10, 2018, 7:04 a.m.