Other packages > Find by keyword >

CREAM  

Clustering of Genomic Regions Analysis Method
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("CREAM", "1.1.1")



Attach the package and use:
library("CREAM")
Maintained by
Benjamin Haibe-Kains
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2017-10-27
Latest Update: 2018-06-06
Description:
Provides a new method for identification of clusters of genomic regions within chromosomes. Primarily, it is used for calling clusters of cis-regulatory elements (COREs). 'CREAM' uses genome-wide maps of genomic regions in the tissue or cell type of interest, such as those generated from chromatin-based assays including DNaseI, ATAC or ChIP-Seq. 'CREAM' considers proximity of the elements within chromosomes of a given sample to identify COREs in the following steps: 1) It identifies window size or the maximum allowed distance between the elements within each CORE, 2) It identifies number of elements which should be clustered as a CORE, 3) It calls COREs, 4) It filters the COREs with lowest order which does not pass the threshold considered in the approach.
How to cite:
Benjamin Haibe-Kains (2017). CREAM: Clustering of Genomic Regions Analysis Method. R package version 1.1.1, https://cran.r-project.org/web/packages/CREAM. Accessed 25 Jun. 2026.
Previous versions and publish date:
1.0.0 (2017-10-27 10:19), 1.1.0 (2018-01-05 17:05)
Other packages that cited CREAM R package
View CREAM citation profile
Other R packages that CREAM depends, imports, suggests or enhances
Complete documentation for CREAM
Functions, R codes and Examples using the CREAM R package
Some associated functions: CREAM . ElementRecog . PeakMinFilt . WindowSizeRecog . WindowVec . 
Some associated R codes: CREAM.R . ElementRecog.R . PeakMinFilt.R . WindowSizeRecog.R . WindowVec.R .  Full CREAM package functions and examples
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

airGRiwrm  
'airGR' Integrated Water Resource Management
Semi-distributed Precipitation-Runoff Modelling based on 'airGR' package models integrating human i ...
Download / Learn more Package Citations See dependency  
edeaR  
Exploratory and Descriptive Event-Based Data Analysis
Exploratory and descriptive analysis of event based data. Provides methods for describing and select ...
Download / Learn more Package Citations See dependency  
sitmo  
Parallel Pseudo Random Number Generator (PPRNG) 'sitmo' Header Files
Provided within are two high quality and fast PPRNGs that may be used in an 'OpenMP' parallel enviro ...
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  
foster  
Forest Structure Extrapolation with R
Set of tools to streamline the modeling of the relationship betweensatellite imagery time series or ...
Download / Learn more Package Citations See dependency  

27,535

R Packages

236,180

Dependencies

73,223

Author Associations

27,536

Publication Badges

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