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

5.44 score 1 packages 46 scripts 287 downloads 111 mentions 5 exports 43 dependencies

Last updated 3 months agofrom:7962d03a95. Checks:1 OK, 6 NOTE. Indexed: yes.

Target	Result	Latest binary
Doc / Vignettes	OK	Dec 30 2024
R-4.5-win	NOTE	Dec 31 2024
R-4.5-linux	NOTE	Dec 30 2024
R-4.4-win	NOTE	Dec 31 2024
R-4.4-mac	NOTE	Dec 30 2024
R-4.3-win	NOTE	Dec 31 2024
R-4.3-mac	NOTE	Dec 30 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 generics 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

An introduction to PROMISE

Rendered fromPROMISE.Rnwusingutils::Sweaveon Dec 30 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