SHORE is a tool for the analysis of Illumina Genome Analyzer expression data, including both mRNA sequencing (mRNA-seq) and small RNA sequencing (sRNA-seq). It includes preprocessing and quality filtering of Illumina GA reads, mapping of reads against a reference genome, splice site detection for mRNA-seq as well as quantitative expression analysis and visualization.
Resources:
- SHORE Downloads
- Associated publications:
Sequencing of natural strains of Arabidopsis thaliana with short reads