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This is the development version of ISLET; for the stable release version, see ISLET.

Individual-Specific ceLl typE referencing Tool

Bioconductor version: Development (3.20)

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.

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

Maintainer: Hao Feng <hxf155 at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


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


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

Individual-specific and cell-type-specific deconvolution using ISLET HTML R Script
Reference Manual PDF


biocViews DifferentialExpression, DifferentialMethylation, GeneExpression, RNASeq, Sequencing, Software, Transcription, Transcriptomics
Version 1.7.0
In Bioconductor since BioC 3.16 (R-4.2) (1.5 years)
License GPL-2
Depends R (>= 4.2.0), Matrix, parallel, BiocParallel, SummarizedExperiment, BiocGenerics, lme4, nnls
Imports stats, methods, purrr, abind
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Suggests BiocStyle, knitr, rmarkdown, htmltools, RUnit, dplyr
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Follow Installation instructions to use this package in your R session.

Source Package ISLET_1.7.0.tar.gz
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macOS Binary (x86_64) ISLET_1.7.0.tgz
macOS Binary (arm64) ISLET_1.7.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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