by Charles Murphy | Jul 18, 2019 | Announcements
Key features We are pleased to announce the release of Basepair’s significantly updated single cell RNA-seq (scRNA-seq) pipeline. It brings many improvements in new features, efficiency, and user friendliness: 1. Seurat version 3 Version 3 of the scRNA-seq...
by Charles Murphy | Mar 5, 2019 | Bioinformatics
Background One of the most popular tools for pathway enrichment analysis for RNA-seq and microarray data is the Gene Set Enrichment Analysis (GSEA) tool by the Broad Institute [1,2]. The database of pathways most often used with GSEA is MSigDB, also by the Broad...
by Charles Murphy | Oct 26, 2018 | Bioinformatics
Trimming for adaptors and low quality bases is important part of the analysis pipeline for sequencing data. Typically, after you isolate and fragment your RNA sample, adaptors are attached to the ends of the sequences that are needed for sequencing (see [1,2] for more...
