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UNDO (version 1.14.0)

Unsupervised Deconvolution of Tumor-Stromal Mixed Expressions

Description

UNDO is an R package for unsupervised deconvolution of tumor and stromal mixed expression data. It detects marker genes and deconvolutes the mixing expression data without any prior knowledge.

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Version

Version

1.14.0

License

GPL-2

Maintainer

Niya Wang

Last Published

February 15th, 2017

Functions in UNDO (1.14.0)

two_source_deconv

Main function to call other subfunction to deconvolute the mixed expression data.
NumericalMixingMatrix

mixing matrix of data NumericalMixMCF7HS27
BiologicalMixMCF7HS27

MCF7 and HS27 biologically mixed
gene_expression_input

Detect whether the input gene expression data are valid
marker_gene_selection

Select marker genes in two sources
dimension_reduction

Dimension reduction function
NumericalMixMCF7HS27

MCF7 and HS27 numerically mixed
UNDO-package

Implementation of UNDO (unsupervised deconvolution of tumor-stromal mixed expressions)
calc_E1

function calculating the E1 measurement
mixing_matrix_computation

Calculate and scale the mixing matrix
PureMCF7HS27

pure MCF7 and HS27