Introduction | Installation | How to run | Read the raw count values | Getting gene chromosomal location | Example code to get gene location information like above | Integrating gene expression and location into a single object. | Final results | Plot expression pattern of a neighbourhood of a gene | Dynamic neighbour | SessionInfo
Package: DELocal 1.13.0
Rishi Das Roy
DELocal: Identifies differentially expressed genes with respect to other local genes
The goal of DELocal is to identify DE genes compared to their neighboring genes from the same chromosomal location. It has been shown that genes of related functions are generally very far from each other in the chromosome. DELocal utilzes this information to identify DE genes comparing with their neighbouring genes.
Authors:
DELocal_1.13.0.tar.gz
DELocal_1.13.0.zip(r-4.7)DELocal_1.13.0.zip(r-4.6)DELocal_1.13.0.zip(r-4.5)
DELocal_1.13.0.tgz(r-4.6-any)DELocal_1.13.0.tgz(r-4.5-any)
DELocal_1.13.0.tar.gz(r-4.7-any)DELocal_1.13.0.tar.gz(r-4.6-any)
DELocal_1.13.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
DELocal/json (API)
| # Install 'DELocal' in R: |
| install.packages('DELocal', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/dasroy/delocal/issues
On BioConductor:DELocal-1.13.0(bioc 3.24)DELocal-1.12.0(bioc 3.23)
geneexpressiondifferentialexpressionrnaseqtranscriptomics
Last updated from:0616957671. Checks:1 NOTE, 9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 185 | ||
| linux-devel-x86_64 | OK | 290 | ||
| source / vignettes | OK | 311 | ||
| linux-release-x86_64 | OK | 357 | ||
| macos-release-arm64 | OK | 242 | ||
| macos-oldrel-arm64 | OK | 211 | ||
| windows-devel | OK | 207 | ||
| windows-release | OK | 217 | ||
| windows-oldrel | OK | 242 | ||
| wasm-release | OK | 186 |
Exports:DELocalplotNeighbourhood
Dependencies:abindBHBiobaseBiocGenericsBiocParallelclicodetoolscpp11DelayedArrayDESeq2dplyrfarverformatRfutile.loggerfutile.optionsgenericsGenomicRangesggplot2gluegtableIRangesisobandlabelinglambda.rlatticelifecyclelimmalocfitmagrittrMatrixMatrixGenericsmatrixStatspillarpkgconfigplyrR6RColorBrewerRcppRcppArmadilloreshape2rlangS4ArraysS4VectorsS7scalesSeqinfosnowSparseArraystatmodstringistringrSummarizedExperimenttibbletidyselectutf8vctrsviridisLitewithrXVector
