recipe bioconductor-standr

Spatial transcriptome analyses of Nanostring's DSP data in R

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/standR.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-standr/meta.yaml

standR is an user-friendly R package providing functions to assist conducting good-practice analysis of Nanostring's GeoMX DSP data. All functions in the package are built based on the SpatialExperiment object, allowing integration into various spatial transcriptomics-related packages from Bioconductor. standR allows data inspection, quality control, normalization, batch correction and evaluation with informative visualizations.

package bioconductor-standr

Versions:

1.2.0-0

Depends:

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-edger >=3.40.0,<3.41.0

• bioconductor-limma >=3.54.0,<3.55.0

• bioconductor-ruvseq >=1.32.0,<1.33.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-singlecellexperiment >=1.20.0,<1.21.0

• bioconductor-spatialexperiment >=1.8.0,<1.9.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• r-base >=4.2,<4.3.0a0

• r-dplyr

• r-ggalluvial

• r-ggplot2

• r-mclustcomp

• r-patchwork

• r-readr

• r-rlang

• r-ruv

• r-tibble

• r-tidyr

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-standr

and update with:

conda update bioconductor-standr

or use the docker container:

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

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

Download stats

Link to this page

Render an badge with the following MarkDown:

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