bioc-issue-bot
commented
6 months ago Hi @jmitchell81
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: domino2
Title: Cell Communication Analysis for Single Cell RNA Sequencing
Version: 0.99.1
Authors@R: c(
person("Christopher", "Cherry", role = c("aut"), email = "ccherry.6574@gmail.com", comment = c(ORCID = "0000-0002-5481-0055")),
person("Jacob T", "Mitchell", role = c("aut", "cre"), email = "jmitch81@jhmi.edu", comment = c(ORCID = "0000-0002-5370-9692")),
person("Sushma", "Nagaraj", role = c("aut"), email = "snagara5@jhmi.edu", comment = c(ORCID = "0000-0001-5166-1309")),
person("Kavita", "Krishnan", role = c("aut"), email = "kkrishnan@jhmi.edu", comment = c(ORCID = "0000-0003-1345-0249")),
person("Dmitrijs", "Lvovs", role = c("aut"), email = "dlvovs1@jhmi.edu"),
person("Elana", "Fertig", role = "ctb", email = "ejfertig@jhmi.edu", comment = c(ORCID = "0000-0003-3204-342X")),
person("Jennifer", "Elisseeff", role = "ctb", email = "jhe@jhu.edu", comment = c(ORCID = "0000-0002-5066-1996"))
)
Description:
Domino2 is a package developed to analyze cell signaling through ligand - receptor - transcription factor networks in scRNAseq data. It takes as input information transcriptomic data, requiring counts, z-scored counts, and cluster labels, as well as information on transcription factor activation (such as from SCENIC) and a database of ligand and receptor pairings (such as from cellphoneDB). This package creates an object storing ligand - receptor - transcription factor linkages by cluster and provides several methods for exploring, summarizing, and visualizing the analysis.
BugReports: https://github.com/FertigLab/domino2/issues
Depends:
R(>= 4.2.0),
Imports:
biomaRt,
ComplexHeatmap,
circlize,
ggpubr,
grDevices,
grid,
igraph,
Matrix,
methods,
plyr,
stats,
utils
License: GPL-3 | file LICENSE
Encoding: UTF-8
LazyData: false
RoxygenNote: 7.2.3
biocViews:
SystemsBiology,
SingleCell,
Transcriptomics,
Network
Suggests:
knitr,
patchwork,
rmarkdown,
Seurat,
testthat,
formatR
VignetteBuilder: knitr
Language: en-US
Roxygen: list(markdown = TRUE)
lshep
jmitchell81
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