Package: ISLET 1.14.0

Hao Feng

ISLET: Individual-Specific ceLl typE referencing Tool

ISLET is a method to conduct signal deconvolution for general -omics data. It can estimate the individual-specific and cell-type-specific reference panels, when there are multiple samples observed from each subject. It takes the input of the observed mixture data (feature by sample matrix), and the cell type mixture proportions (sample by cell type matrix), and the sample-to-subject information. It can solve for the reference panel on the individual-basis and conduct test to identify cell-type-specific differential expression (csDE) genes. It also improves estimated cell type mixture proportions by integrating personalized reference panels.

Authors:Hao Feng [aut, cre], Qian Li [aut], Guanqun Meng [aut]

ISLET_1.14.0.tar.gz
ISLET_1.14.0.zip(r-4.7)ISLET_1.14.0.zip(r-4.6)ISLET_1.14.0.zip(r-4.5)
ISLET_1.14.0.tgz(r-4.6-any)ISLET_1.14.0.tgz(r-4.5-any)
ISLET_1.14.0.tar.gz(r-4.7-any)ISLET_1.14.0.tar.gz(r-4.6-any)
ISLET_1.14.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
ISLET/json (API)
NEWS

# Install 'ISLET' in R:
install.packages('ISLET', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • GE600_se - ISLET deconvolution example raw input data
  • GE600age_se - ISLET example datasets for slope variable testing in csDE

On BioConductor:ISLET-1.15.0(bioc 3.24)ISLET-1.14.0(bioc 3.23)

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

softwarernaseqtranscriptomicstranscriptionsequencinggeneexpressiondifferentialexpressiondifferentialmethylation

4.15 score 14 scripts 326 downloads 8 exports 45 dependencies

Last updated from:93f8111327 (on RELEASE_3_23). Checks:1 NOTE, 9 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksNOTE260
linux-devel-x86_64OK474
source / vignettesOK347
linux-release-x86_64OK439
macos-release-arm64OK417
macos-oldrel-arm64OK310
windows-develOK642
windows-releaseOK627
windows-oldrelOK714
wasm-releaseOK135

Exports:caseEstctrlEstdataPrepdataPrepSlopeimplyimplyDataPrepisletSolveisletTest

Dependencies:abindBHBiobaseBiocGenericsBiocParallelbootclicodetoolscpp11DelayedArrayformatRfutile.loggerfutile.optionsgenericsGenomicRangesglueIRangeslambda.rlatticelifecyclelme4magrittrMASSMatrixMatrixGenericsmatrixStatsminqanlmenloptrnnlspurrrrbibutilsRcppRcppEigenRdpackreformulasrlangS4ArraysS4VectorsSeqinfosnowSparseArraySummarizedExperimentvctrsXVector

Individual-specific and cell-type-specific deconvolution using ISLET

Hao Feng, Qian Li, Guanqun Meng

Rendered fromISLET.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2023-09-15
Started: 2022-06-15