recipe bioconductor-nucpos

An R package for prediction of nucleosome positions

Homepage:

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

License:

GPL-2

Recipe:

/bioconductor-nucpos/meta.yaml

nuCpos, a derivative of NuPoP, is an R package for prediction of nucleosome positions. In nuCpos, a duration hidden Markov model is trained with a chemical map of nucleosomes either from budding yeast, fission yeast, or mouse embryonic stem cells. nuCpos outputs the Viterbi (most probable) path of nucleosome-linker states, predicted nucleosome occupancy scores and histone binding affinity (HBA) scores as NuPoP does. nuCpos can also calculate local and whole nucleosomal HBA scores for a given 147-bp sequence. Note: This package was designed to demonstrate the use of chemical maps in prediction. As the parental package NuPoP now provide chemical-map-based prediction, users are strongly encouraged to use it for dHMM-based prediction.

package bioconductor-nucpos

(downloads) docker_bioconductor-nucpos

Versions:
1.16.0-01.12.0-21.12.0-11.12.0-01.10.0-01.8.0-11.8.0-01.6.0-01.4.0-0

1.16.0-01.12.0-21.12.0-11.12.0-01.10.0-01.8.0-11.8.0-01.6.0-01.4.0-01.2.0-21.2.0-11.2.0-01.0.1-01.0.0-0

Depends:
Required By:

Installation

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

conda install bioconductor-nucpos

and update with:

conda update bioconductor-nucpos

or use the docker container:

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

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

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