Other packages > Find by keyword >

DEET  

Differential Expression Enrichment Tool
View on CRAN: Click here


Download and install DEET package within the R console
Install from CRAN:
install.packages("DEET")

Install from Github:
library("remotes")
install_github("cran/DEET")

Install by package version:
library("remotes")
install_version("DEET", "1.0.12")



Attach the package and use:
library("DEET")
Maintained by
Dustin Sokolowski
[Scholar Profile | Author Map]
First Published: 2022-06-27
Latest Update: 2023-08-17
Description:
Abstract of Manuscript. Differential gene expression analysis using RNA sequencing (RNA-seq) data is a standard approach for making biological discoveries. Ongoing large-scale efforts to process and normalize publicly available gene expression data enable rapid and systematic reanalysis. While several powerful tools systematically process RNA-seq data, enabling their reanalysis, few resources systematically recompute differentially expressed genes (DEGs) generated from individual studies. We developed a robust differential expression analysis pipeline to recompute 3162 human DEG lists from The Cancer Genome Atlas, Genotype-Tissue Expression Consortium, and 142 studies within the Sequence Read Archive. After measuring the accuracy of the recomputed DEG lists, we built the Differential Expression Enrichment Tool (DEET), which enables users to interact with the recomputed DEG lists. DEET, available through CRAN and RShiny, systematically queries which of the recomputed DEG lists share similar genes, pathways, and TF targets to their own gene lists. DEET identifies relevant studies based on shared results with the user
How to cite:
Dustin Sokolowski (2022). DEET: Differential Expression Enrichment Tool. R package version 1.0.12, https://cran.r-project.org/web/packages/DEET. Accessed 12 May. 2025.
Previous versions and publish date:
1.0.2 (2022-06-27 09:30), 1.0.5 (2022-07-19 10:00), 1.0.6 (2022-10-10 04:50), 1.0.7 (2022-12-15 00:20), 1.0.8 (2023-01-05 16:20), 1.0.10 (2023-05-01 19:00), 1.0.11 (2023-08-17 09:52)
Other packages that cited DEET R package
View DEET citation profile
Other R packages that DEET depends, imports, suggests or enhances
Complete documentation for DEET
Downloads during the last 30 days
04/1204/1304/1404/1504/1604/1704/1804/1904/2004/2104/2204/2304/2404/2504/2604/2704/2804/2904/3005/0105/0205/0305/0405/0505/0605/0705/0805/0905/1005/11Downloads for DEET01020304050607080TrendBars

Today's Hot Picks in Authors and Packages

LatticeKrig  
Multi-Resolution Kriging Based on Markov Random Fields
Methods for the interpolation of large spatial datasets. This package follows a "fixed rank Kriging ...
Download / Learn more Package Citations See dependency  
nextGenShinyApps  
Craft Exceptional 'R Shiny' Applications and Dashboards with Novel Responsive Tools
Nove responsive tools for designing and developing 'Shiny' dashboards and applications. The scripts ...
Download / Learn more Package Citations See dependency  
epinet  
Epidemic/Network-Related Tools
A collection of epidemic/network-related tools. Simulates transmission of diseases through contact n ...
Download / Learn more Package Citations See dependency  
sGMRFmix  
Sparse Gaussian Markov Random Field Mixtures for Anomaly Detection
An implementation of sparse Gaussian Markov random field mixtures presented by Ide et al. (2016) ...
Download / Learn more Package Citations See dependency  
errorist  
Automatically Search Errors or Warnings
Provides environment hooks that obtain errors and warnings which occur during the execution of code ...
Download / Learn more Package Citations See dependency  
pander  
An R 'Pandoc' Writer
Contains some functions catching all messages, 'stdout' and other useful information while evaluati ...
Download / Learn more Package Citations See dependency  

24,223

R Packages

207,311

Dependencies

65,402

Author Associations

24,224

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA