- recipe bioconductor-chromscape
Analysis of single-cell epigenomics datasets with a Shiny App
- Homepage
https://bioconductor.org/packages/3.14/bioc/html/ChromSCape.html
- License
GPL-3
- Recipe
ChromSCape - Chromatin landscape profiling for Single Cells - is a ready-to-launch user-friendly Shiny Application for the analysis of single-cell epigenomics datasets (scChIP-seq, scATAC-seq, scCUT&Tag, …) from aligned data to differential analysis & gene set enrichment analysis. It is highly interactive, enables users to save their analysis and covers a wide range of analytical steps: QC, preprocessing, filtering, batch correction, dimensionality reduction, vizualisation, clustering, differential analysis and gene set analysis.
- package bioconductor-chromscape¶
-
- Versions
1.4.0-1
,1.4.0-0
,1.2.0-0
,1.0.0-2
,1.0.0-1
- Depends
bioconductor-batchelor
>=1.10.0,<1.11.0
bioconductor-biocparallel
>=1.28.0,<1.29.0
bioconductor-consensusclusterplus
>=1.58.0,<1.59.0
bioconductor-delayedarray
>=0.20.0,<0.21.0
bioconductor-edger
>=3.36.0,<3.37.0
bioconductor-genomicranges
>=1.46.0,<1.47.0
bioconductor-iranges
>=2.28.0,<2.29.0
bioconductor-rsamtools
>=2.10.0,<2.11.0
bioconductor-rtracklayer
>=1.54.0,<1.55.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
bioconductor-scater
>=1.22.0,<1.23.0
bioconductor-scran
>=1.22.0,<1.23.0
bioconductor-singlecellexperiment
>=1.16.0,<1.17.0
bioconductor-summarizedexperiment
>=1.24.0,<1.25.0
bioconductor-sushi
>=1.31.0,<1.32.0
libblas
>=3.8.0,<4.0a0
libgcc-ng
>=10.3.0
liblapack
>=3.8.0,<4.0a0
libstdcxx-ng
>=10.3.0
r-base
>=4.1,<4.2.0a0
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-chromscape
and update with:
conda update bioconductor-chromscape
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-chromscape:<tag>
(see bioconductor-chromscape/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-chromscape/README.html)