- recipe bioconductor-catalyst
Cytometry dATa anALYSis Tools
- Homepage
https://bioconductor.org/packages/3.14/bioc/html/CATALYST.html
- License
GPL (>=2)
- Recipe
Mass cytometry (CyTOF) uses heavy metal isotopes rather than fluorescent tags as reporters to label antibodies, thereby substantially decreasing spectral overlap and allowing for examination of over 50 parameters at the single cell level. While spectral overlap is significantly less pronounced in CyTOF than flow cytometry, spillover due to detection sensitivity, isotopic impurities, and oxide formation can impede data interpretability. We designed CATALYST (Cytometry dATa anALYSis Tools) to provide a pipeline for preprocessing of cytometry data, including i) normalization using bead standards, ii) single-cell deconvolution, and iii) bead-based compensation.
- package bioconductor-catalyst¶
-
- Versions
1.18.0-0
,1.16.0-0
,1.14.0-1
,1.14.0-0
,1.12.1-0
,1.10.0-0
,1.8.6-0
,1.6.0-0
- Depends
bioconductor-complexheatmap
>=2.10.0,<2.11.0
bioconductor-consensusclusterplus
>=1.58.0,<1.59.0
bioconductor-flowcore
>=2.6.0,<2.7.0
bioconductor-flowsom
>=2.2.0,<2.3.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
bioconductor-scater
>=1.22.0,<1.23.0
bioconductor-singlecellexperiment
>=1.16.0,<1.17.0
bioconductor-summarizedexperiment
>=1.24.0,<1.25.0
r-base
>=4.1,<4.2.0a0
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-catalyst
and update with:
conda update bioconductor-catalyst
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-catalyst:<tag>
(see bioconductor-catalyst/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
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