This repository contains code used for quality control and data analysis presented in:
Langouet-Astrie CJ, Meinsen AL, Grunwald ER, Turner SD, Enke RA. RNA sequencing analysis of the developing chicken retina. Scientific Data (2016) 3:160117.
Data is available in GEO under the accession number GSE65938.
Software | Version | URL |
---|---|---|
FastQC | 0.11.4 | http://www.bioinformatics.babraham.ac.uk/projects/fastqc/ |
STAR | 2.5.1b | https://github.com/alexdobin/STAR/releases |
FeatureCounts | 1.5.0 | http://bioinf.wehi.edu.au/featureCounts/ |
DESeq2 | 1.6.2 | http://bioconductor.org/packages/DESeq2 |
Code used for all of the quality assessment and data analysis steps are available in each of the scripts below.