Package: CellMapper 1.39.0

Brad Nelms

CellMapper: Predict genes expressed selectively in specific cell types

Infers cell type-specific expression based on co-expression similarity with known cell type marker genes. Can make accurate predictions using publicly available expression data, even when a cell type has not been isolated before.

Authors:Brad Nelms

CellMapper_1.39.0.tar.gz
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manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
CellMapper/json (API)

# Install 'CellMapper' in R:

install.packages('CellMapper', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

ExampleQueryGenes - Example Gene Lists
NegativeControlGenes - Example Gene Lists
PositiveControlGenes - Example Gene Lists

On BioConductor:CellMapper-1.39.0(bioc 3.24)CellMapper-1.38.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

microarray software geneexpression

4.06 score 19 scripts 3 mentions 5 exports 3 dependencies

Last updated from:3827636d6d. Checks:1 ERROR, 7 WARNING, 2 OK. Indexed: yes.

Target	Result	Time
bioc-checks	ERROR	159
linux-devel-x86_64	WARNING	264
source / vignettes	OK	663
linux-release-x86_64	WARNING	482
macos-release-arm64	WARNING	258
macos-oldrel-arm64	WARNING	149
windows-devel	WARNING	339
windows-release	WARNING	1231
windows-oldrel	WARNING	211
wasm-release	OK	128

Exports:CellMapperList CMprep CMsearch ReplicateManuscript show

Dependencies:BiocGenerics generics S4Vectors

CellMapper Vignette

1 Overview | 2 Getting Started | 3 Planning a CellMapper Analysis | 4 Running CellMapper | 5 Advanced Examples

Rendered fromCellMapper.Rnwusingutils::Sweave

Last update: 2018-08-29
Started: 2016-07-22

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Class to contain expression data pre-processed for the 'CellMapper' package. The 'CellMapperList' class extends the 'SimpleList' class.	CellMapperList CellMapperList-class show,CellMapperList-method
Pre-process a gene expression dataset for CellMapper	CMprep
Predict cell type-expressed genes using CellMapper	CellMapper CMsearch
Example Gene Lists	ExampleGeneLists ExampleQueryGenes NegativeControlGenes PositiveControlGenes
Replicate Results from CellMapper Manuscript	ReplicateManuscript