omnideconv

immunedeconv

A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution methods

omnideconv

Unified access to several second-generation deconvolution methods

spacedeconv

A unified interface to spatial transcriptomics deconvolution tools

SimBu

Simulate pseudo-bulk RNAseq samples from scRNAseq expression data

deconvExplorer

omnideconv.github.io

methylDeconv

Runs and compares different methylation based cell type deconvolution algorithms

MethylResolver

Robust method for deconvolving bulk tissue methylation data using least trimmed squares (LTS) regression

BayesPrism

CDSeq

CDSeq R package patched and maintained to be used in the omnideconv installation

DWLS

DWLS R package patched and maintained to be used in the omnideconv installation

.github

bseqsc

Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline

harmony

Fast, sensitive and accurate integration of single-cell data with Harmony

MOMF

MOMF R package patched and maintained to be used in the omnideconv installation

MuSiC

Multi-subject Single Cell Deconvolution

scaden

Deep Learning based cell composition analysis with Scaden.

SCDC

SCDC R package patched and maintained to be used in the omnideconv installation