Package: AnnotationFilter 1.31.0

Bioconductor Package Maintainer

AnnotationFilter: Facilities for Filtering Bioconductor Annotation Resources

This package provides class and other infrastructure to implement filters for manipulating Bioconductor annotation resources. The filters will be used by ensembldb, Organism.dplyr, and other packages.

Authors:Martin Morgan [aut], Johannes Rainer [aut], Joachim Bargsten [ctb], Daniel Van Twisk [ctb], Bioconductor Package Maintainer [cre]

AnnotationFilter_1.31.0.tar.gz
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AnnotationFilter.pdf |AnnotationFilter.html✨
AnnotationFilter/json (API)
NEWS

# Install 'AnnotationFilter' in R:

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

Bug tracker:https://github.com/bioconductor/annotationfilter/issues

On BioConductor:AnnotationFilter-1.31.0(bioc 3.21)AnnotationFilter-1.30.0(bioc 3.20)

annotation infrastructure software bioconductor-package core-package

10.19 score 5 stars 161 packages 44 scripts 18k downloads 1 mentions 37 exports 19 dependencies

Last updated 24 days agofrom:164eaea3c4. Checks:OK: 6 WARNING: 1. Indexed: no.

Target	Result	Date
Doc / Vignettes	OK	Nov 03 2024
R-4.5-win	OK	Nov 03 2024
R-4.5-linux	WARNING	Nov 03 2024
R-4.4-win	OK	Nov 03 2024
R-4.4-mac	OK	Nov 03 2024
R-4.3-win	OK	Nov 03 2024
R-4.3-mac	OK	Nov 03 2024

Exports:AnnotationFilter AnnotationFilterList CdsEndFilter CdsStartFilter condition convertFilter distributeNegation EntrezFilter ExonEndFilter ExonIdFilter ExonNameFilter ExonRankFilter ExonStartFilter feature field GeneBiotypeFilter GeneEndFilter GeneIdFilter GenenameFilter GeneNameFilter GeneStartFilter GRangesFilter logicOp not ProteinIdFilter SeqNameFilter SeqStrandFilter show supportedFilters SymbolFilter TxBiotypeFilter TxEndFilter TxIdFilter TxNameFilter TxStartFilter UniprotFilter value

Dependencies:askpass BiocGenerics curl generics GenomeInfoDb GenomeInfoDbData GenomicRanges httr IRanges jsonlite lazyeval mime openssl R6 S4Vectors sys UCSC.utils XVector zlibbioc

Facilities for Filtering Bioconductor Annotation Resources

Rendered fromAnnotationFilter.Rmdusingknitr::rmarkdownon Nov 03 2024.

Last update: 2018-06-12
Started: 2017-07-27

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Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Filters for annotation objects	.GRangesFilter AnnotationFilter AnnotationFilter-class CdsEndFilter CdsEndFilter-class CdsStartFilter CdsStartFilter-class CharacterFilter-class condition condition,AnnotationFilter-method convertFilter,AnnotationFilter,missing-method DoubleFilter-class EntrezFilter EntrezFilter-class ExonEndFilter ExonEndFilter-class ExonIdFilter ExonIdFilter-class ExonNameFilter ExonNameFilter-class ExonRankFilter ExonRankFilter-class ExonStartFilter ExonStartFilter-class feature field field,AnnotationFilter-method GeneBiotypeFilter GeneBiotypeFilter-class GeneEndFilter GeneEndFilter-class GeneIdFilter GeneIdFilter-class GeneNameFilter GeneNameFilter-class GeneStartFilter GeneStartFilter-class GRangesFilter GRangesFilter-class IntegerFilter-class not,AnnotationFilter-method ProteinIdFilter ProteinIdFilter-class SeqNameFilter SeqNameFilter-class SeqStrandFilter SeqStrandFilter-class show,AnnotationFilter-method show,CharacterFilter-method show,DoubleFilter-method show,GRangesFilter-method show,IntegerFilter-method supportedFilters supportedFilters,missing-method SymbolFilter SymbolFilter-class TxBiotypeFilter TxBiotypeFilter-class TxEndFilter TxEndFilter-class TxIdFilter TxIdFilter-class TxNameFilter TxNameFilter-class TxStartFilter TxStartFilter-class UniprotFilter UniprotFilter-class value value,AnnotationFilter-method
Combining annotation filters	AnnotationFilterList AnnotationFilterList-class convertFilter convertFilter,AnnotationFilterList,missing-method distributeNegation distributeNegation,AnnotationFilterList-method logicOp logicOp,AnnotationFilterList-method not not,AnnotationFilterList-method show,AnnotationFilterList-method value,AnnotationFilterList-method
DEPRECATED Gene name filter	GenenameFilter GenenameFilter-class