envData

exp.example

cellmatrix

mutcell

mutmatrix

The variables in the environment include an example expression profiles, a cell abundance matrix, a binary numerical matrix which shows the immune cells driven by somatic mutation, a binary mutations matrix.

data

A computing tool is developed to automated identify somatic mutation-driven immune cells. The operation modes including: i) inferring the relative abundance matrix of tumor-infiltrating immune cells and integrating it with a particular gene mutation status, ii) detecting differential immune cells with respect to the gene mutation status and converting the abundance matrix of significant differential immune cell into two binary matrices (one for up-regulated and one for down-regulated), iii) identifying somatic mutation-driven immune cells by comparing the gene mutation status with each immune cell in the binary matrices across all samples, and iv) visualization of immune cell abundance of samples in different mutation status..

Junwei Han

SMDIC

Identification of Somatic Mutation-Driven Immune Cells

Baotong Zheng

envData function

Format

Junwei Han<a href="/link/hanjunwei1981%40163.com?package=SMDIC&version=0.1.6" data-mini-rdoc="SMDIC::hanjunwei1981@163.com">hanjunwei1981@163.com</a>,Baotong Zheng<a href="/link/btzheng1116%40163.com?package=SMDIC&version=0.1.6" data-mini-rdoc="SMDIC::btzheng1116@163.com">btzheng1116@163.com</a>

Author

envData — envData

Junwei Han<a href='mailto:hanjunwei1981@163.com'>hanjunwei1981@163.com</a>,Baotong Zheng<a href='mailto:btzheng1116@163.com'>btzheng1116@163.com</a>

envData: envData

Description

Arguments

Format

Author

Details