recipe bioconductor-metcirc

Navigating mass spectral similarity in high-resolution MS/MS metabolomics data

Homepage:

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

License:

GPL (>= 3)

Recipe:

/bioconductor-metcirc/meta.yaml

Links:

biotools: metcirc, doi: 10.1093/bioinformatics/btx159

MetCirc comprises a workflow to interactively explore high-resolution MS/MS metabolomics data. MetCirc uses the Spectra object infrastructure defined in the package Spectra that stores MS/MS spectra. MetCirc offers functionality to calculate similarity between precursors based on the normalised dot product, neutral losses or user-defined functions and visualise similarities in a circular layout. Within the interactive framework the user can annotate MS/MS features based on their similarity to (known) related MS/MS features.

package bioconductor-metcirc

Versions:

1.28.0-0,  1.24.0-0,  1.22.0-0,  1.20.0-1,  1.20.0-0,  1.18.0-0,  1.16.0-0,  1.14.0-1,  1.14.0-0, 

1.28.0-0,  1.24.0-0,  1.22.0-0,  1.20.0-1,  1.20.0-0,  1.18.0-0,  1.16.0-0,  1.14.0-1,  1.14.0-0,  1.12.1-0,  1.10.0-0,  1.6.0-0,  1.2.0-0

Depends:

• bioconductor-mscoreutils >=1.10.0,<1.11.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-spectra >=1.8.0,<1.9.0

• r-amap >=0.8

• r-base >=4.2,<4.3.0a0

• r-circlize >=0.3.9

• r-ggplot2 >=3.2.1

• r-scales >=0.3.0

• r-shiny >=1.0.0

Required By:

Installation

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

conda install bioconductor-metcirc

and update with:

conda update bioconductor-metcirc

or use the docker container:

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

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

Download stats

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