shawlab-moffitt Goto Github PK

adios-cancer-data

batch-flex-shinyapp

batchflex

berlin

BERLIN: Basic Exploration of single-cell RNAseq data and LINeages.

chromosomemappings

This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.

cseminer-manuscript

cseminer-manuscript-generate-docker-images

csidb

demodata

drppm

Integrated software for processing omics data.

drppm-easy-ccle

This is an extension of the DRPPM-EASY app integrating Cancer Cell Line Encyclopedia (CCLE) data for seamless differential gene expression and GSEA based on user sample selection

drppm-easy-expranalysisshiny

With a few steps this workflow will allow for easy preparation of an R Shiny webpage for differential gene expression and gene set enrichment analysis

drppm-easy-integration

This is an extension of the DRPPM-EASY app, allowing for further integration of data and matrices comparison with differential gene expression and GSEA

drppm-easy-largeproject

As an extension of the DRPPM EASY app, this "Large Project" version allows users to analyze data from large studies and consortiums such as CCLE and CPTAC and perform custom differential gene expression and pathway analysis

drppm-easy-largeproject-integration

An extension of the DRPPM EASY App that allows for integrative analysis between user data and large project datasets

drppm-fileprep_shinyapp

drppm-jaccard-pathway-connectivity

As part of the DRPPM-PATH-SURVEIOR family, this R Shiny app aims to identify clusters of pathways based on Jaccard Distance

drppm-path-surveior

Survival Analysis through the integration of expression data, phenotype data, and clinical data

drppm-path-surveior-pipeline

As part of the DRPPM-PATH-SURVEIOR family, this pipeline aims to identify top pathways and genes that are significant in High-Risk patients

drppm-preranked-gsea

As part of the DRPPM-PATH-SURVEIOR family, this R Shiny app aims to perform GSEA with a pre-ranked set of genes determined by hazard ratio

drppm-splice-wrap-tutorial

DRPPM is a library collection of scripts for analyzing DNA/RNA/Proteome/Post-translational Modifications. This is an example of the pipeline being utilized for USP7 Knockdown RNAseq data.

drppm-umap-shiny

geo_datadownload_example

hackathon2022

Hackathon- hack it up!

human2mousegenesymbolconversion

introduction-to-building-docker-for-berlin-pipeline

To simplify this intricate process and streamline scRNAseq data analysis, we present the Building Docker for BERLIN project.

introduction-to-building-docker-for-velocyto-pipeline

Building Docker for velocyto from Single Cell Gene Expression Dataset by Cell Ranger

jumpn_1.0.0

markdown_readme

Markdown - you can mark up titles, lists, tables, etc., in a much cleaner, readable and accurate way if you do it with HTML.

methylator_group