Package: LoopRig 0.1.1
Hassaan Maan
LoopRig: Integration and Analysis of Chromatin Loop Data
Common coordinate-based workflows involving processed chromatin loop and genomic element data are considered and packaged into appropriate customizable functions. Includes methods for linking element sets via chromatin loops and creating consensus loop datasets.
Authors:
LoopRig_0.1.1.tar.gz
LoopRig_0.1.1.tar.gz(r-4.5-noble)LoopRig_0.1.1.tar.gz(r-4.4-noble)
LoopRig_0.1.1.tgz(r-4.4-emscripten)LoopRig_0.1.1.tgz(r-4.3-emscripten)
LoopRig.pdf |LoopRig.html✨
LoopRig/json (API)
NEWS
| # Install 'LoopRig' in R: |
| install.packages('LoopRig', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 5 years agofrom:0c320a770f. Checks:OK: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 11 2024 |
| R-4.5-linux | OK | Dec 11 2024 |
Exports:ConsensusLoopsDropLoopsElementsToRangesExportBEDLinkedElementsLoopsToRangesScaffoldElementsStackedElements
Dependencies:askpassBiocGenericscurlgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangeshttrIRangesjsonlitemimeopensslR6S4VectorssysUCSC.utilsXVectorzlibbioc
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Subset an object of class LoopRanges using consensus options | ConsensusLoops |
| Drop loops from _LoopRanges_ objects using anchor and loop sizes | DropLoops |
| Create a list of ranges objects from element data | ElementsToRanges |
| Export a LoopRanges or _italics_ElementRanges object to a BED/BEDPE file | ExportBED |
| Determines elements linked by loop anchors | LinkedElements |
| Create a list of ranges objects from looping data | LoopsToRanges |
| Finds elements within loops scaffolded by another set of elements | ScaffoldElements |
| Finds elements stacked atop loop anchors | StackedElements |