recipe bioconductor-tradeseq

trajectory-based differential expression analysis for sequencing data

Homepage

https://bioconductor.org/packages/3.11/bioc/html/tradeSeq.html

License

MIT + file LICENSE

Recipe

/bioconductor-tradeseq/meta.yaml

tradeSeq provides a flexible method for fitting regression models that can be used to find genes that are differentially expressed along one or multiple lineages in a trajectory. Based on the fitted models, it uses a variety of tests suited to answer different questions of interest, e.g. the discovery of genes for which expression is associated with pseudotime, or which are differentially expressed (in a specific region) along the trajectory. It fits a negative binomial generalized additive model (GAM) for each gene, and performs inference on the parameters of the GAM.

package bioconductor-tradeseq

(downloads) docker_bioconductor-tradeseq

Versions

1.2.0-0, 1.0.0-0

Depends
Required By

Installation

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

conda install bioconductor-tradeseq

and update with:

conda update bioconductor-tradeseq

or use the docker container:

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

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