-
recipe
bioconductor-ctggem
Generating Tree Hierarchy Visualizations from Gene Expression Data
- Homepage
https://bioconductor.org/packages/3.12/bioc/html/ctgGEM.html
- License
GPL(>=2)
- Recipe
Cell Tree Generator for Gene Expression Matrices (ctgGEM) streamlines the building of cell-state hierarchies from single-cell gene expression data across multiple existing tools for improved comparability and reproducibility. It supports pseudotemporal ordering algorithms and visualization tools from monocle, cellTree, TSCAN, sincell, and destiny, and provides a unified output format for integration with downstream data analysis workflows and Cytoscape.
-
package
bioconductor-ctggem
¶ -
- Versions
1.2.0-0
,0.99.3-0
- Depends
bioconductor-biobase
>=2.50.0,<2.51.0
bioconductor-biocgenerics
>=0.36.0,<0.37.0
bioconductor-destiny
>=3.4.0,<3.5.0
bioconductor-hsmmsinglecell
>=1.10.0,<1.11.0
bioconductor-monocle
>=2.18.0,<2.19.0
bioconductor-sincell
>=1.22.0,<1.23.0
bioconductor-summarizedexperiment
>=1.20.0,<1.21.0
bioconductor-tscan
>=1.28.0,<1.29.0
r-base
>=4.0,<4.1.0a0
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-ctggem
and update with:
conda update bioconductor-ctggem
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-ctggem:<tag>
(see bioconductor-ctggem/tags for valid values for
<tag>
)
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-ctggem/README.html)