Analysis of RNA decay data set

This repo is a template for running differential gene expression analysis of RNA-seq count data followed by gene set enrichment analysis. This workflow is run in R using Rmarkdown. It is based around the popular R packages, DESeq2, fGSEA, and others.

Gene Set Enrichment Class Analysis for heterogeneous RNA sequencing data

Inter-sample analysis of SQANTI classifications

Annotation and Analysis of Deep Sequencing Variants from CirSeq

Pipeline and scripts for the comparative analysis of ribosome profiling and matched RNA sequencing data between organs and across species.

As part of an overall strategy for improving therapies for childhood cancers, the PPTC seeks to develop models for the types of tumors that will be encountered in early phase clinical testing by establishing patient derived xenografts (PDXs) from high-risk childhood cancers refractory to current standard of care treatments. Genomic profiling of …

DInoPORE: Direct detection of INOsines in native RNA with nanoPORE sequencing

An R package for finding non-adenosine residues in poly(A) tails of ONT direct RNA sequencing reads

RNA-Seq data analysis: whole transcriptome, stranded, dUTP method

Accurate and robust inference of genetic ancestry from cancer-derived molecular data across genomic platforms

R package for visualization and exploratory analysis of Oxford Nanopore direct RNA seq based polyA predictions