interactive Bioinformatics Exploratory Tools
-
Updated
Jul 11, 2024 - R
interactive Bioinformatics Exploratory Tools
Brings bulk and pseudobulk transcriptomics to the tidyverse
R Markdown script to perform bioinformatic analysis of RNA-seq raw count matrices, including DE-testing via DESeq2 and gene set enrichment analysis (GSEA).
R package for the recount2 project. Documentation website: http://leekgroup.github.io/recount/
Transcript quantification import for modular pipelines
This tutorial is created for educational purpose
Investigate the role of mtDNA in the sex determination/development of Potamilus streckersoni, a freshwater mussel with doubly uniparental mitochondrial inheritance. Scripts for DESeq2, WGCNA, GSEA, AlphaFold/AlphaPulldown, and mt-sncRNA validation.
Probabilistic outlier identification for bulk RNA sequencing data
Nextflow implementation of DESeq2 for Seven Bridges CAVATICA platform
Statistical Analysis of RNA-Seq Tools
Performing RNA-Seq data analysis and quality control using DESeq2 in R.
Generate HTML report for a set of genomic regions or DESeq2/edgeR results
A shiny application to perform differential gene expression analysis of count data using DESeq2. The app also allows unsupervised exploration of data using PCA and hierarchical clustering.
SBC analysis with DIGIST
A R shiny dashboard of differential expression in human embryonic stem cells.
Some of the analytical processes and tools we use to provide rigorous and actionable results to our clients.
Here, we describe and provide an RNA-Seq analysis of a RIP assay to understand the mechanism of AML del(9q) progression. (Ali T. Abdallah)
Add a description, image, and links to the deseq2 topic page so that developers can more easily learn about it.
To associate your repository with the deseq2 topic, visit your repo's landing page and select "manage topics."