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 08 Aug. 2026.
Previous versions and publish date:
(2026-07-09 07:12), 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), 1.1.15 (2026-03-06 11:20)
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

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  
productplots  
Product Plots for R
Framework for visualising tables of counts, proportions and probabilities. The framework is called ...
Download / Learn more Package Citations See dependency  
Morpho  
Calculations and Visualisations Related to Geometric Morphometrics
A toolset for Geometric Morphometrics and mesh processing. This includes (among other stuff) mesh d ...
Download / Learn more Package Citations See dependency  
FastGaSP  
Fast and Exact Computation of Gaussian Stochastic Process
Implements fast and exact computation of Gaussian stochastic process with the Matern kernel using fo ...
Download / Learn more Package Citations See dependency  
box  
Write Reusable, Composable and Modular R Code
A modern module system for R. Organise code into hierarchical, composable, reusable modules, and us ...
Download / Learn more Package Citations See dependency  
skewt  
The Skewed Student-t Distribution
Density, distribution function, quantile function and random generation for the skewed t distributio ...
Download / Learn more Package Citations See dependency  

28,083

R Packages

239,283

Dependencies

74,752

Author Associations

28,084

Publication Badges

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