Other packages > Find by keyword >

tepr  

Transcription Elongation Profiling
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("tepr", "1.1.13")



Attach the package and use:
library("tepr")
Maintained by
Nicolas Descostes
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2025-04-22
Latest Update: 2025-08-25
Description:
The general principle relies on calculating the cumulative signal of nascent RNA sequencing over the gene body of any given gene or transcription unit. 'tepr' can identify transcription attenuation sites by comparing profile to a null model which assumes uniform read density over the entirety of the transcription unit. It can also identify increased or diminished transcription attenuation by comparing two conditions. Besides rigorous statistical testing and high sensitivity, a major feature of 'tepr' is its ability to provide the elongation pattern of each individual gene, including the position of the main attenuation point when such a phenomenon occurs. Using 'tepr', users can visualize and refine genome-wide aggregated analyses of elongation patterns to robustly identify effects specific to subsets of genes. These metrics are suitable for internal comparisons (between genes in each condition) and for studying elongation of the same gene in different conditions or comparing it to a perfect theoretical uniform elongation.
How to cite:
Nicolas Descostes (2025). tepr: Transcription Elongation Profiling. R package version 1.1.13, https://cran.r-project.org/web/packages/tepr. Accessed 05 Jun. 2026.
Previous versions and publish date:
1.1.8 (2025-04-22 15:30), 1.1.9 (2025-08-19 02:00), 1.1.10 (2025-09-03 15:30), 1.1.11 (2025-10-24 17:20), 1.1.12 (2025-11-04 15:10), 1.1.13 (2025-12-12 00:20), 1.1.14 (2026-01-28 22:20)
Other packages that cited tepr R package
View tepr citation profile
Other R packages that tepr depends, imports, suggests or enhances
Complete documentation for tepr
Functions, R codes and Examples using the tepr R package
Full tepr package functions and examples
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

msm  
Multi-State Markov and Hidden Markov Models in Continuous Time
Functions for fitting continuous-time Markov and hidden Markov multi-state models to longitudinal d ...
Download / Learn more Package Citations See dependency  
ibb  
R Wrapper for Istanbul Municipality Open Data Portal
Call wrappers for Istanbul Metropolitan Municipality's Open Data Portal (Turkish: Istanbul B ...
Download / Learn more Package Citations See dependency  
crossurr  
Cross-Fitting for Doubly Robust Evaluation of High-Dimensional Surrogate Markers
Doubly robust methods for evaluating surrogate markers as outlined in: Agniel D, Hejblum BP, Thiebau ...
Download / Learn more Package Citations See dependency  
quickcode  
Quick and Essential 'R' Tricks for Better Scripts
The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to im ...
Download / Learn more Package Citations See dependency  
envirem  
Generation of ENVIREM Variables
Generation of bioclimatic rasters that are complementary to the typical 19 bioclim variables. ...
Download / Learn more Package Citations See dependency  

27,268

R Packages

233,548

Dependencies

72,590

Author Associations

27,205

Publication Badges

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