Granatum: a graphical single-cell RNA-Seq analysis pipeline for genomics scientists.

ABSTRACT:

Background

Single-cell RNA sequencing (scRNA-Seq) is an increasingly popular platform to study heterogeneity at the single-cell level. Computational methods to process scRNA-Seq data are not very accessible to bench scientists as they require a significant amount of bioinformatic skills.

Results

We have developed Granatum, a web-based scRNA-Seq analysis pipeline to make analysis more broadly accessible to researchers. Without a single line of programming code, users can click through the pipeline, setting parameters and visualizing results via the interactive graphical interface. Granatum conveniently walks users through various steps of scRNA-Seq analysis. It has a comprehensive list of modules, including plate merging and batch-effect removal, outlier-sample removal, gene-

SUBMITTER: Zhu X 

PROVIDER: S-EPMC5716224 | biostudies-literature | 2017 Dec

REPOSITORIES: biostudies-literature