bioc-issue-bot
commented
5 months ago Hi @smped
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: transmogR
Type: Package
Title: Modify a set of reference sequences using a set of variants
Version: 0.99.0
Authors@R: person("Stevie", "Pederson",
email = "stephen.pederson.au@gmail.com",
role = c("aut", "cre"),
comment = c(ORCID = "0000-0001-8197-3303")
)
Description: transmogR provides the tools needed to crate a new reference
genome or reference transcriptome, using a set of variants. Variants can
be any combination of SNPs, Insertions and Deletions. The intended
use-case is to enable creation of variant-modified reference
transcriptomes for incorporation into transcriptomic pseudo-alignment
workflows, such as salmon.
License: GPL-3
Encoding: UTF-8
URL: https://github.com/smped/transmogR
BugReports: https://github.com/smped/transmogR/issues
Depends:
Biostrings,
GenomicRanges
Imports:
BSgenome,
ComplexUpset,
GenomeInfoDb,
GenomicFeatures,
ggplot2,
InteractionSet,
IRanges,
methods,
parallel,
rlang,
scales,
stats,
S4Vectors,
SummarizedExperiment,
VariantAnnotation
Suggests:
BiocStyle,
BSgenome.Hsapiens.UCSC.hg38,
extraChIPs,
knitr,
rmarkdown,
rtracklayer,
testthat (>= 3.0.0)
biocViews: Alignment, GenomicVariation, Sequencing, TranscriptomeVariant
BiocType: Software
VignetteBuilder: knitr
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.0
Config/testthat/edition: 3
lshep
smped
LiNk-NY
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