recipe bioconductor-tscan

Tools for Single-Cell Analysis

Homepage

https://bioconductor.org/packages/3.14/bioc/html/TSCAN.html

License

GPL(>=2)

Recipe

/bioconductor-tscan/meta.yaml

Links

biotools: tscan, doi: 10.1093/nar/gkw430

Provides methods to perform trajectory analysis based on a minimum spanning tree constructed from cluster centroids. Computes pseudotemporal cell orderings by mapping cells in each cluster (or new cells) to the closest edge in the tree. Uses linear modelling to identify differentially expressed genes along each path through the tree. Several plotting and interactive visualization functions are also implemented.

package bioconductor-tscan

Versions

1.32.0-0,  1.30.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.22.0-0,  1.20.0-0, 

1.32.0-0,  1.30.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.22.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-0,  1.14.0-0

Depends

• bioconductor-delayedarray >=0.20.0,<0.21.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-singlecellexperiment >=1.16.0,<1.17.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• bioconductor-trajectoryutils >=1.2.0,<1.3.0

• r-base >=4.1,<4.2.0a0

• r-combinat

• r-fastica

• r-ggplot2

• r-gplots

• r-igraph

• r-matrix

• r-mclust

• r-mgcv

• r-plyr

• r-shiny

Required By

• bioconductor-ctggem

• bioconductor-feast

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-tscan

and update with:

conda update bioconductor-tscan

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-tscan:<tag>

(see bioconductor-tscan/tags for valid values for <tag>)

Download stats

Link to this page

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