Other packages > Find by keyword >

countToFPKM  

Convert Counts to Fragments per Kilobase of Transcript per Million (FPKM)
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("countToFPKM", "1.0")



Attach the package and use:
library("countToFPKM")
Maintained by
Ahmed Alhendi
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2019-04-07
Latest Update: 2019-04-07
Description:
Implements the algorithm described in Trapnell,C. et al. (2010) . This function takes read counts matrix of RNA-Seq data, feature lengths which can be retrieved using 'biomaRt' package, and the mean fragment lengths which can be calculated using the 'CollectInsertSizeMetrics(Picard)' tool. It then returns a matrix of FPKM normalised data by library size and feature effective length. It also provides the user with a quick and reliable function to generate FPKM heatmap plot of the highly variable features in RNA-Seq dataset.
How to cite:
Ahmed Alhendi (2019). countToFPKM: Convert Counts to Fragments per Kilobase of Transcript per Million (FPKM). R package version 1.0, https://cran.r-project.org/web/packages/countToFPKM. Accessed 22 Dec. 2024.
Previous versions and publish date:
No previous versions
Other packages that cited countToFPKM R package
View countToFPKM citation profile
Other R packages that countToFPKM depends, imports, suggests or enhances
Complete documentation for countToFPKM
Functions, R codes and Examples using the countToFPKM R package
Some associated functions: fpkm . fpkmheatmap . 
Some associated R codes: countToFPKM-internal.R .  Full countToFPKM package functions and examples
Downloads during the last 30 days
Get rewarded with contribution points by helping add
Reviews / comments / questions /suggestions ↴↴↴

Today's Hot Picks in Authors and Packages

LOGANTree  
Tree-Based Models for the Analysis of Log Files from Computer-Based Assessments
Enables researchers to model log-file data from computer-based assessments using machine-learning te ...
Download / Learn more Package Citations See dependency  
Maintainer: Qi Qin (view profile)
elect  
Estimation of Life Expectancies Using Multi-State Models
Functions to compute state-specific and marginal life expectancies. The computation is based on a fi ...
Download / Learn more Package Citations See dependency  
Rfast2  
A Collection of Efficient and Extremely Fast R Functions II
A collection of fast statistical and utility functions for data analysis. Functions for regression, ...
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  
composits  
Compositional, Multivariate and Univariate Time Series Outlier Ensemble
A compositional multivariate and univariate time series outlier ensemble.It uses the four R packages ...
Download / Learn more Package Citations See dependency  
tropAlgebra  
Tropical Algebraic Functions
It includes functions like tropical addition, tropical multiplication for vectors and matrices. In t ...
Download / Learn more Package Citations See dependency  

23,394

R Packages

201,798

Dependencies

63,416

Author Associations

23,395

Publication Badges

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