Package: SemDist 1.47.0

Ian Gonzalez

SemDist: Information Accretion-based Function Predictor Evaluation

This package implements methods to calculate information accretion for a given version of the gene ontology and uses this data to calculate remaining uncertainty, misinformation, and semantic similarity for given sets of predicted annotations and true annotations from a protein function predictor.

Authors:Ian Gonzalez and Wyatt Clark

SemDist_1.47.0.tar.gz
SemDist_1.47.0.zip(r-4.7)SemDist_1.47.0.zip(r-4.6)SemDist_1.47.0.zip(r-4.5)
SemDist_1.47.0.tgz(r-4.6-any)SemDist_1.47.0.tgz(r-4.5-any)
SemDist_1.47.0.tar.gz(r-4.7-any)SemDist_1.47.0.tar.gz(r-4.6-any)
SemDist_1.47.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
SemDist/json (API)
NEWS

# Install 'SemDist' in R:

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

Bug tracker:https://github.com/iangonzalez/semdist/issues

Datasets:

IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
IAccr - Information Accretion Data
parentcnt - Parent Count Data
parentcnt - Parent Count Data
parentcnt - Parent Count Data
parentcnt - Parent Count Data
parentcnt - Parent Count Data
parentcnt - Parent Count Data
parentcnt - Parent Count Data
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parentcnt - Parent Count Data
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parentcnt - Parent Count Data
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parentcnt - Parent Count Data
parentcnt - Parent Count Data
parentcnt - Parent Count Data
parentcnt - Parent Count Data
parentcnt - Parent Count Data
termcnt - Term Count Data
termcnt - Term Count Data
termcnt - Term Count Data
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termcnt - Term Count Data
termcnt - Term Count Data
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termcnt - Term Count Data
termcnt - Term Count Data
termcnt - Term Count Data
termcnt - Term Count Data

On BioConductor:SemDist-1.47.0(bioc 3.24)SemDist-1.46.0(bioc 3.23)

classification annotation go software

4.30 score 1 stars 8 scripts 428 downloads 2 mentions 3 exports 39 dependencies

Last updated from:12072a46a9. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.

Target	Result	Time
bioc-checks	ERROR	171
linux-devel-x86_64	NOTE	304
source / vignettes	OK	175
linux-release-x86_64	NOTE	246
macos-release-arm64	NOTE	191
macos-oldrel-arm64	NOTE	154
windows-devel	NOTE	224
windows-release	NOTE	174
windows-oldrel	NOTE	187
wasm-release	OK	120

Exports:computeIA findRUMI RUMIcurve

Dependencies:annotate AnnotationDbi askpass Biobase BiocGenerics Biostrings bit bit64 blob cachem cli cpp11 crayon curl DBI fastmap generics glue GO.db httr IRanges jsonlite KEGGREST lifecycle memoise mime openssl pkgconfig png R6 rlang RSQLite S4Vectors Seqinfo sys vctrs XML xtable XVector

Using SemDist

Rendered fromintroduction.rnwusingutils::Sweaveon May 30 2026.

Last update: 2018-09-07
Started: 2014-08-22

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Compute information accretion for an ontology	computeIA
Information accretion based predictor assessment	findRUMI
Information Accretion Data	IAccr
Parent Count Data	parentcnt
Information accretion based predictor assessment (across many thresholds)	RUMIcurve
Term Count Data	termcnt