Other packages > Find by keyword >

colocalized  

Clusters of Colocalized Sequences
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("colocalized", "0.2.0")



Attach the package and use:
library("colocalized")
Maintained by
Stefan Golas
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2019-09-19
Latest Update: 2019-10-18
Description:
Also abbreviates to "CCSeq". Finds clusters of colocalized sequences in .bed annotation files up to a specified cut-off distance. Two sequences are colocalized if they are within the cut-off distance of each other, and clusters are sets of sequences where each sequence is colocalized to at least one other sequence in the cluster. For a set of .bed annotation tables provided in a list along with a cut-off distance, the program will output a file containing the locations of each cluster. Annotated .bed files are from the 'pwmscan' application at . Personal machines might crash or take excessively long depending on the number of annotated sequences in each file and whether chromsearch() or gensearch() is used.
How to cite:
Stefan Golas (2019). colocalized: Clusters of Colocalized Sequences. R package version 0.2.0, https://cran.r-project.org/web/packages/colocalized. Accessed 15 Jul. 2026.
Previous versions and publish date:
(2026-07-09 07:27), 0.1.0 (2019-09-19 11:00)
Other packages that cited colocalized R package
View colocalized citation profile
Other R packages that colocalized depends, imports, suggests or enhances
Complete documentation for colocalized
Functions, R codes and Examples using the colocalized R package
Some associated functions: ColocalizedFullSearch . chromsearch . colocalized . colocalized_sequential . gensearch . nfkb1 . nfkb2 . onedim_dist . relb . 
Some associated R codes: chromsearch.R . colocalized.R . gensearch.R . nfkb1.R . nfkb2.R . onedim_dist.R . relb.R .  Full colocalized package functions and examples
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

binhf  
Haar-Fisz Functions for Binomial Data
Binomial Haar-Fisz transforms for Gaussianization as in Nunes and Nason (2009). ...
Download / Learn more Package Citations See dependency  
r2resize  
In-Text Resize for Images, Tables and Fancy Resize Containers in 'shiny', 'rmarkdown' and 'quarto' Documents
Automatic resizing toolbar for containers, images and tables. Various resizable or expandable contai ...
Download / Learn more Package Citations See dependency  
gscaLCA  
Generalized Structure Component Analysis- Latent Class Analysis & Latent Class Regression
Execute Latent Class Analysis (LCA) and Latent Class Regression (LCR) by using Generalized Structu ...
Download / Learn more Package Citations See dependency  
gamlss.add  
Extra Additive Terms for Generalized Additive Models for Location Scale and Shape
Interface for extra smooth functions including tensor products, neural networks and decision trees. ...
Download / Learn more Package Citations See dependency  
SECFISH  
Disaggregate Variable Costs
These functions were developed within SECFISH project (Strengthening regional cooperation in the are ...
Download / Learn more Package Citations See dependency  
pulseTD  
Identification of Transcriptional Dynamics using Pulse Models via 4su-Seq Data and RNA-Seq Data
A tool for analyzing the transcription, processing and degradation rates of genes by 4sU-seq (the Me ...
Download / Learn more Package Citations See dependency  

27,806

R Packages

239,283

Dependencies

73,837

Author Associations

27,807

Publication Badges

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