Package: rPanglaoDB 0.2.1

rPanglaoDB: Download and Merge Single-Cell RNA-Seq Data from the PanglaoDB Database

Download and merge labeled single-cell RNA-seq data from the PanglaoDB <https://panglaodb.se/> into a Seurat object.

Authors:Daniel Osorio [aut, cre], Marieke Kuijjer [aut], James J. Cai [aut]

rPanglaoDB_0.2.1.tar.gz
rPanglaoDB_0.2.1.zip(r-4.5)rPanglaoDB_0.2.1.zip(r-4.4)rPanglaoDB_0.2.1.zip(r-4.3)
rPanglaoDB_0.2.1.tgz(r-4.4-any)rPanglaoDB_0.2.1.tgz(r-4.3-any)
rPanglaoDB_0.2.1.tar.gz(r-4.5-noble)rPanglaoDB_0.2.1.tar.gz(r-4.4-noble)
rPanglaoDB_0.2.1.tgz(r-4.4-emscripten)
rPanglaoDB.pdf |rPanglaoDB.html✨
rPanglaoDB/json (API)

# Install 'rPanglaoDB' in R:

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

Bug tracker:https://github.com/dosorio/rpanglaodb/issues

On CRAN:

data-integration data-mining rna-seq single-cell single-cell-rna-seq

4.39 score 26 stars 19 scripts 177 downloads 4 exports 148 dependencies

Last updated 1 years agofrom:01f058050c. Checks:OK: 1 NOTE: 6. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Nov 22 2024
R-4.5-win	NOTE	Nov 22 2024
R-4.5-linux	NOTE	Nov 22 2024
R-4.4-win	NOTE	Nov 22 2024
R-4.4-mac	NOTE	Nov 22 2024
R-4.3-win	NOTE	Nov 22 2024
R-4.3-mac	NOTE	Nov 22 2024

Exports:getMarkers getSampleComposition getSampleList getSamples

Dependencies:abind askpass base64enc BH bitops bslib cachem caTools cli cluster codetools colorspace commonmark cowplot cpp11 crayon crosstalk curl data.table deldir digest dotCall64 dplyr dqrng evaluate fansi farver fastDummies fastmap fitdistrplus FNN fontawesome fs future future.apply generics ggplot2 ggrepel ggridges globals glue goftest gplots gridExtra gtable gtools here highr htmltools htmlwidgets httpuv httr ica igraph irlba isoband jquerylib jsonlite KernSmooth knitr labeling later lattice lazyeval leiden lifecycle listenv lmtest magrittr MASS Matrix matrixStats memoise mgcv mime miniUI munsell nlme openssl parallelly patchwork pbapply pillar pkgconfig plotly plyr png polyclip progressr promises purrr R6 RANN rappdirs RColorBrewer Rcpp RcppAnnoy RcppArmadillo RcppEigen RcppHNSW RcppProgress RcppTOML reshape2 reticulate rlang rmarkdown ROCR rprojroot RSpectra Rtsne sass scales scattermore sctransform Seurat SeuratObject shiny sitmo sourcetools sp spam spatstat.data spatstat.explore spatstat.geom spatstat.random spatstat.sparse spatstat.univar spatstat.utils stringi stringr survival sys tensor tibble tidyr tidyselect tinytex utf8 uwot vctrs viridisLite withr xfun XML xml2 xtable yaml zoo

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Get the list of samples from the panglaoDB database with a pattern of expression for a set of molecular markers.	getMarkers
Get the cell-type content for each sample from the panglaoDB database.	getSampleComposition
Get the sample list from the panglaoDB database.	getSampleList
Download the expression matrix and annotations from the panglaoDB database.	getSamples

Usage by other packages (reverse dependencies)