Package: colocalized 0.2.0

colocalized: Clusters of Colocalized Sequences

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 <https://ccg.epfl.ch/pwmtools/pwmscan.php>. 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.

Authors:Stefan Golas [cre, aut]

colocalized_0.2.0.tar.gz
colocalized_0.2.0.zip(r-4.7-any)colocalized_0.2.0.zip(r-4.6-any)colocalized_0.2.0.zip(r-4.5-any)
colocalized_0.2.0.tgz(r-4.6-any)colocalized_0.2.0.tgz(r-4.5-any)
colocalized_0.2.0.tar.gz(r-4.7-any)colocalized_0.2.0.tar.gz(r-4.6-any)
colocalized_0.2.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
colocalized/json (API)

# Install 'colocalized' in R:
install.packages('colocalized', repos = c('https://stefangolas.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:

On CRAN:

Conda:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

1.00 score 428 downloads 6 exports 11 dependencies

Last updated from:496527ec2f. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develOK98
source / vignettesOK144
linux-releaseOK93
macos-releaseOK106
macos-oldrelOK107
windows-develOK62
windows-releaseOK50
windows-oldrelOK73
wasm-releaseOK79

Exports:chromsearchcolocalizedcolocalized_sequentialColocalizedFullSearchgensearchonedim_dist

Dependencies:clicodetoolsdoParallelforeachglueiteratorslifecyclemagrittrpurrrrlangvctrs