-
recipe
bioconductor-sincell
R package for the statistical assessment of cell state hierarchies from single-cell RNA-seq data
- Homepage
https://bioconductor.org/packages/3.12/bioc/html/sincell.html
- License
GPL (>= 2)
- Recipe
- Links
biotools: sincell
Cell differentiation processes are achieved through a continuum of hierarchical intermediate cell-states that might be captured by single-cell RNA seq. Existing computational approaches for the assessment of cell-state hierarchies from single-cell data might be formalized under a general workflow composed of i) a metric to assess cell-to-cell similarities (combined or not with a dimensionality reduction step), and ii) a graph-building algorithm (optionally making use of a cells-clustering step). Sincell R package implements a methodological toolbox allowing flexible workflows under such framework. Furthermore, Sincell contributes new algorithms to provide cell-state hierarchies with statistical support while accounting for stochastic factors in single-cell RNA seq. Graphical representations and functional association tests are provided to interpret hierarchies.
-
package
bioconductor-sincell
¶ -
- Versions
1.22.0-0
,1.20.0-0
,1.18.0-0
,1.16.0-1
,1.16.0-0
,1.14.1-0
,1.14.0-0
,1.12.0-0
,1.10.0-0
- Depends
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-sincell
and update with:
conda update bioconductor-sincell
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-sincell:<tag>
(see bioconductor-sincell/tags for valid values for
<tag>
)
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-sincell/README.html)