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GitHub / combiz / scFlow

Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.

JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/combiz%2FscFlow

Stars: 50
Forks: 14
Open Issues: 11

License: other
Language: R
Repo Size: 48.4 MB
Dependencies: 95

Created: over 4 years ago
Updated: 5 months ago
Last pushed: 3 months ago
Last synced: 3 months ago

Topics: r, rna-seq, single-cell

Files

Readme

Dependencies

DESCRIPTION cran

BiocGenerics * imports
DT * imports
DelayedArray * imports
DelayedMatrixStats * imports
DirichletReg * imports
DoubletFinder * imports
DropletUtils * imports
EWCE * imports
GenomicRanges * imports
IRanges * imports
MAST * imports
Matrix * imports
Matrix.utils * imports
R.utils * imports
RANN.L1 * imports
ROntoTools * imports
RcppParallel * imports
Rtsne * imports
S4Vectors * imports
Seurat * imports
SingleCellExperiment * imports
SummarizedExperiment * imports
UpSetR * imports
WebGestaltR * imports
assertthat * imports
batchelor * imports
bib2df * imports
biomaRt * imports
cli * imports
cowplot * imports
data.table * imports
doParallel * imports
dplyr * imports
edgeR * imports
english * imports
enrichR * imports
forcats * imports
foreach * imports
formattable * imports
future * imports
future.apply * imports
gdtools * imports
ggdendro * imports
ggplot2 * imports
ggpubr * imports
ggrepel * imports
ggridges * imports
graph * imports
graphite * imports
httr * imports
igraph * imports
kBET * imports
leaflet * imports
limma * imports
magrittr * imports
methods * imports
monocle3 * imports
nVennR * imports
paletteer * imports
patchwork * imports
plotly * imports
plyr * imports
preprocessCore * imports
prettydoc * imports
purrr * imports
qs * imports
rlang * imports
rliger * imports
rmarkdown * imports
scales * imports
scater * imports
sctransform * imports
stats * imports
stringr * imports
threejs * imports
tibble * imports
tidyr * imports
tidyselect * imports
uniftest * imports
utils * imports
uwot * imports
vroom * imports
BiocStyle * suggests
covr * suggests
knitr * suggests
scFlowData * suggests
scFlowExamples * suggests
spelling * suggests
testthat >= 2.1.0 suggests

.github/workflows/r_package_dev-nf.yaml actions

actions/checkout v3 composite
docker/build-push-action v4 composite
docker/login-action v1 composite
docker/setup-buildx-action v2 composite
r-lib/actions/setup-r v2 composite

Dockerfile docker

rocker/rstudio 4.2.2 build