Package: GenomicCoordinates 1.0.0

Jacques Serizay

GenomicCoordinates: Enhanced string parsing for genomic coordinates

Extends string parsing capabilities for genomic coordinates, supporting various formats including comma-separated numbers, space-delimited coordinates, and automatic detection of GRanges, GPos, and GInteractions objects.

Authors:Jacques Serizay [aut, cre]

GenomicCoordinates_1.0.0.tar.gz
GenomicCoordinates_1.0.0.zip(r-4.7)GenomicCoordinates_1.0.0.zip(r-4.6)GenomicCoordinates_1.0.0.zip(r-4.5)
GenomicCoordinates_1.0.0.tgz(r-4.6-any)GenomicCoordinates_1.0.0.tgz(r-4.5-any)
GenomicCoordinates_1.0.0.tar.gz(r-4.7-any)GenomicCoordinates_1.0.0.tar.gz(r-4.6-any)
GenomicCoordinates_1.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
GenomicCoordinates/json (API)

# Install 'GenomicCoordinates' in R:

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

Bug tracker:https://github.com/js2264/genomiccoordinates/issues

On BioConductor:GenomicCoordinates-1.1.0(bioc 3.24)GenomicCoordinates-1.0.0(bioc 3.23)

infrastructure datarepresentation genomeannotation

4.60 score 2 stars 4 scripts 194 downloads 6 exports 65 dependencies

Last updated from:0e2d7872dc (on RELEASE_3_23). Checks:1 NOTE, 9 OK. Indexed: no.

Target	Result	Time
bioc-checks	NOTE	209
linux-devel-x86_64	OK	404
source / vignettes	OK	318
linux-release-x86_64	OK	422
macos-release-arm64	OK	217
macos-oldrel-arm64	OK	197
windows-devel	OK	270
windows-release	OK	267
windows-oldrel	OK	285
wasm-release	OK	152

Exports:as_ginteractions as_gpos as_granges as_iranges detect_genomic_class GenomicCoordinates

Dependencies:abind askpass BH Biobase BiocGenerics BiocIO BiocParallel Biostrings bitops cigarillo cli codetools cpp11 crayon curl DelayedArray dplyr formatR futile.logger futile.options generics GenomicAlignments GenomicRanges glue httr InteractionSet IRanges jsonlite lambda.r lattice lifecycle magrittr Matrix MatrixGenerics matrixStats mime openssl pillar pkgconfig plyinteractions plyranges R6 Rcpp RCurl restfulr Rhtslib rjson rlang Rsamtools rtracklayer S4Arrays S4Vectors Seqinfo snow SparseArray SummarizedExperiment sys tibble tidyselect utf8 vctrs withr XML XVector yaml

GenomicCoordinates: Enhanced String Parsing for Genomic Coordinates

Jacques Serizay

Rendered fromGenomicCoordinates.Rmdusingknitr::rmarkdownon Jun 10 2026.

Last update: 2026-03-31
Started: 2025-09-04

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Handle special genomic string formats	.handle_special_formats
Additional helper functions for corner cases	.is_single_position
Convert to GPos object	as_gpos
Conversion methods for genomic coordinates	as_ginteractions,character-method as_gpos,character-method as_granges,character-method as_iranges,character-method coercion
Detect the appropriate class for genomic strings	detect_genomic_class
GenomicCoordinates: Main parsing function	GenomicCoordinates
Re-exported functions from plyranges and plyinteractions	as_ginteractions as_granges as_iranges reexports