This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

Menu

Documentation:

R / CRAN packages and documentation

Support

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

ISLET

Individual-Specific ceLl typE referencing Tool

Bioconductor version: Release (3.17)

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. It can also conduct test to identify cell-type-specific differential expression (csDE) genes.

Author: Hao Feng [aut, cre], Qian Li [aut]

Maintainer: Hao Feng <hxf155 at case.edu>

Citation (from within R, enter citation("ISLET")):

Installation

To install this package, start R (version "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("ISLET")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("ISLET")
Individual-specific and cell-type-specific deconvolution using ISLET HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews DifferentialExpression, DifferentialMethylation, GeneExpression, RNASeq, Sequencing, Software, Transcription, Transcriptomics
Version 1.2.0
In Bioconductor since BioC 3.16 (R-4.2) (1 year)
License GPL-2
Depends R (>= 4.1.0), Matrix, parallel, BiocParallel, SummarizedExperiment, BiocGenerics
Imports stats, methods
Linking To
Suggests BiocStyle, knitr, rmarkdown, htmltools, RUnit
System Requirements
Enhances
URL
See More
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package ISLET_1.2.0.tar.gz
Windows Binary ISLET_1.2.0.zip (64-bit only)
macOS Binary (x86_64) ISLET_1.2.0.tgz
macOS Binary (arm64) ISLET_1.2.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ISLET
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ISLET
Bioc Package Browser https://code.bioconductor.org/browse/ISLET/
Package Short Url https://bioconductor.org/packages/ISLET/
Package Downloads Report Download Stats