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All Projects → xzhoulab → iDEA

xzhoulab / iDEA

Licence: GPL-3.0 license
Differential expression (DE); gene set Enrichment Analysis (GSEA); single cell RNAseq studies (scRNAseq)

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Labels

rna-seqsingle-celldifferential-gene-expressiongsea

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iDEA

Integrative Differential expression and gene set Enrichment Analysis using summary statistics for single cell RNAseq studies

System requirements

This package is supported for Windows 10, MAC and Linux. The package has been tested on the following systems:

  • Windows 10: Home (1903)
  • MAC: OSX (10.14.1)
  • Linux: Ubuntu (16.04.6)

Dependencies (r packages)

  • Rcpp (>= 1.0.0)
  • RcppArmadillo (>=0.9.400.2)
  • doParallel (>=1.0.15)
  • doSNOW (>=1.0.15)
  • foreach (>=1.4.4)
  • parallel (>=3.6.1)

Installation

# install devtools if necessary
install.packages('devtools')

# install the iDEA package
devtools::install_github('xzhoulab/iDEA')

# load package
library(iDEA)

How to cite iDEA

Ying Ma, Shiquan Sun, Evan T. Keller, Mengjie Chen and Xiang Zhou#. Integrative differential expression and gene set enrichment analysis using summary statistics for single cell RNAseq studies, Nature Communications 2020.(https://www.nature.com/articles/s41467-020-15298-6)

How to use iDEA

Details in Tutorial

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