Package: adSplit 1.77.0

Claudio Lottaz

adSplit: Annotation-Driven Clustering

This package implements clustering of microarray gene expression profiles according to functional annotations. For each term genes are annotated to, splits into two subclasses are computed and a significance of the supporting gene set is determined.

Authors:Claudio Lottaz, Joern Toedling

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adSplit.pdf |adSplit.html✨
adSplit/json (API)

# Install 'adSplit' in R:

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

Uses libs:

c++– GNU Standard C++ Library v3

Datasets:

golubKEGGSplits - Examplar splitSet

On BioConductor:adSplit-1.77.0(bioc 3.21)adSplit-1.76.0(bioc 3.20)

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

microarray clustering cpp

3.30 score 1 scripts 492 downloads 5 exports 46 dependencies

Last updated 2 months agofrom:7c97ce73a7. Checks:OK: 5 NOTE: 4. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Nov 29 2024
R-4.5-win-x86_64	OK	Nov 29 2024
R-4.5-linux-x86_64	OK	Nov 29 2024
R-4.4-win-x86_64	OK	Nov 29 2024
R-4.4-mac-x86_64	NOTE	Nov 29 2024
R-4.4-mac-aarch64	NOTE	Nov 29 2024
R-4.3-win-x86_64	OK	Nov 29 2024
R-4.3-mac-x86_64	NOTE	Nov 29 2024
R-4.3-mac-aarch64	NOTE	Nov 29 2024

Exports:adSplit diana2means drawRandomPS makeEID2PROBESenv randomDiana2means

Dependencies:AnnotationDbi askpass Biobase BiocGenerics Biostrings bit bit64 blob cachem cli cluster cpp11 crayon curl DBI fastmap generics GenomeInfoDb GenomeInfoDbData glue GO.db httr IRanges jsonlite KEGGREST lattice lifecycle MASS Matrix memoise mime multtest openssl pkgconfig plogr png R6 rlang RSQLite S4Vectors survival sys UCSC.utils vctrs XVector zlibbioc

Annotation-Driven Clustering

Rendered fromtr_2005_02.Rnwusingutils::Sweaveon Nov 29 2024.

Last update: 2013-11-01
Started: 2013-11-01

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Annotation-Driven Splits	adSplit
2-Means with Hierarchical Initialization	diana2means
Draw sets of probe-sets	drawRandomPS
Examplar splitSet	golubKEGGSplits
Overview Histogram for splitSets	hist,splitSet-method hist.splitSet
Illustrate Split Sets	image,splitSet-method image.splitSet
Generate EID2PROBES environment	makeEID2PROBESenv
Generate null-distributions of DLD-scores	randomDiana2means