ScQCEA: a framework for annotation and quality control report of single-cell RNA-sequencing data.

ABSTRACT:

Background

Systematic description of library quality and sequencing performance of single-cell RNA sequencing (scRNA-seq) data is imperative for subsequent downstream modules, including re-pooling libraries. While several packages have been developed to visualise quality control (QC) metrics for scRNA-seq data, they do not include expression-based QC to discriminate between true variation and background noise.

Results

We present scQCEA (acronym of the single-cell RNA sequencing Quality Control and Enrichment Analysis), an R package to generate reports of process optimisation metrics for comparing sets of samples and visual evaluation of quality scores. scQCEA can import data from 10X or other single-cell platforms and includes functions for generating an interactive report o

SUBMITTER: Nassiri I 

PROVIDER: S-EPMC10327311 | biostudies-literature | 2023 Jul

REPOSITORIES: biostudies-literature