Package: PROMISE 1.59.0

Stan Pounds

PROMISE: PRojection Onto the Most Interesting Statistical Evidence

A general tool to identify genomic features with a specific biologically interesting pattern of associations with multiple endpoint variables as described in Pounds et. al. (2009) Bioinformatics 25: 2013-2019

Authors:Stan Pounds <[email protected]>, Xueyuan Cao <[email protected]>

PROMISE_1.59.0.tar.gz
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PROMISE.pdf |PROMISE.html✨
PROMISE/json (API)

# Install 'PROMISE' in R:

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

Datasets:

phPatt - Phenotype Pattern Definition Set
sampExprSet - An Example Expression Set
sampGeneSet - An Example Gene Set Collection

On BioConductor:PROMISE-1.59.0(bioc 3.21)PROMISE-1.58.0(bioc 3.20)

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

microarray onechannel multiplecomparison geneexpression

5.42 score 1 packages 44 scripts 264 downloads 111 mentions 5 exports 43 dependencies

Last updated 23 days agofrom:7962d03a95. Checks:OK: 1 NOTE: 6. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Oct 31 2024
R-4.5-win	NOTE	Oct 31 2024
R-4.5-linux	NOTE	Oct 31 2024
R-4.4-win	NOTE	Oct 31 2024
R-4.4-mac	NOTE	Oct 31 2024
R-4.3-win	NOTE	Oct 31 2024
R-4.3-mac	NOTE	Oct 31 2024

Exports:avg.abs.genestat jung.rstat PROMISE promise.genestat spearman.rstat

Dependencies:annotate AnnotationDbi askpass Biobase BiocGenerics Biostrings bit bit64 blob cachem cli cpp11 crayon curl DBI fastmap GenomeInfoDb GenomeInfoDbData glue graph GSEABase httr IRanges jsonlite KEGGREST lifecycle memoise mime openssl pkgconfig plogr png R6 rlang RSQLite S4Vectors sys UCSC.utils vctrs XML xtable XVector zlibbioc

An introduction to PROMISE

Rendered fromPROMISE.Rnwusingutils::Sweaveon Oct 31 2024.

Last update: 2014-07-08
Started: 2013-11-01

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
PRojection Onto the Most Interesting Statistical Evidence	PROMISE-package
Function to Compute Gene Set Statistics	avg.abs.genestat
Function to Compute Jung's Statistics	jung.rstat
Phenotype Pattern Definition Set	phPatt
PRojection onto the Most Interesting Statistical Evidence	PROMISE
Function to Calculate PROMISE Statistics	promise.genestat
PROMISE pattern	promise.pattern
An Example Expression Set	sampExprSet
An Example Gene Set Collection	sampGeneSet
Function to Calculate Spearman Correlation Statistics	spearman.rstat