recipe bioconductor-tofsims

Import, process and analysis of Time-of-Flight Secondary Ion Mass Spectrometry (ToF-SIMS) imaging data

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-tofsims/meta.yaml

This packages offers a pipeline for import, processing and analysis of ToF-SIMS 2D image data. Import of Iontof and Ulvac-Phi raw or preprocessed data is supported. For rawdata, mass calibration, peak picking and peak integration exist. General funcionality includes data binning, scaling, image subsetting and visualization. A range of multivariate tools common in the ToF-SIMS community are implemented (PCA, MCR, MAF, MNF). An interface to the bioconductor image processing package EBImage offers image segmentation functionality.

package bioconductor-tofsims

Versions:

1.22.0-1,  1.22.0-0,  1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-0,  1.12.0-1,  1.12.0-0, 

1.22.0-1,  1.22.0-0,  1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-0,  1.12.0-1,  1.12.0-0,  1.10.1-0,  1.10.0-0

Depends:

• bioconductor-alsace >=1.30.0,<1.31.0

• bioconductor-protgenerics >=1.26.0,<1.27.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=10.3.0

• liblapack >=3.8.0,<4.0a0

• libstdcxx-ng >=10.3.0

• r-als

• r-base >=4.1,<4.2.0a0

• r-kernsmooth

• r-rcpp >=0.11.2

• r-rcpparmadillo

• r-signal

Required By:

Installation

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

conda install bioconductor-tofsims

and update with:

conda update bioconductor-tofsims

or use the docker container:

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

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

Download stats

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