bioc-issue-bot
commented
3 months ago Hi @emaigne
Thanks for submitting your package. We are taking a quick look at it and you will hear back from us soon.
The DESCRIPTION file for this package is:
Package: HiCParser
Type: Package
Title: Parser for HiC data in R
Date: 2024-07-10
Version: 0.99.0
URL: https://github.com/emaigne/HiCParser
BugReports: https://github.com/emaigne/HiCParser/issues
Authors@R: c(
person("Zytnicki", "Matthias", email = "matthias.zytnicki@inrae.fr", role = c("aut")),
person("Maigné", "Élise", email = "elise.maigne@inrae.fr", role = c("aut", "cre")))
Description:
This package is a parser to import HiC data into R.
It accepts several type of data: tabular files, Cooler `.cool` or
`.mcool` files, Juicer `.hic` files or HiC-Pro `.matrix` and `.bed` files.
The HiC data can be several files, for several replicates and conditions.
The data is formated in an InteractionSet object.
License: LGPL
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
LazyData: true
biocViews:
Software, HiC, DataImport
Imports:
data.table,
InteractionSet,
GenomicRanges,
SummarizedExperiment,
Rcpp (>= 1.0.12),
S4Vectors,
gtools,
pbapply,
BiocGenerics,
GenomeInfoDb
LinkingTo: Rcpp
Suggests:
rhdf5,
BiocStyle,
knitr,
RefManageR,
rmarkdown,
sessioninfo,
testthat (>= 3.0.0)
Config/testthat/edition: 3
VignetteBuilder: knitr
emaigne
Kayla-Morrell
This package is a parser to import HiC data into R, from several formats. Most of functions are extracted from our Bioconductor Package HiCDOC (already published). But this package can be cumbersome to install. Our goal is to split the actual HiCDOC package in two : one package to parse the data (a "light" package, that could be used in other packages to import Hi-C data) and a future HiCDOC package, without the definitions of parser functions.
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