recipe bioconductor-findit2

find influential TF and Target based on multi-omics data

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/FindIT2.html

License:

Artistic-2.0

Recipe:

/bioconductor-findit2/meta.yaml

This package implements functions to find influential TF and target based on different input type. It have five module: Multi-peak multi-gene annotaion(mmPeakAnno module), Calculate regulation potential(calcRP module), Find influential Target based on ChIP-Seq and RNA-Seq data(Find influential Target module), Find influential TF based on different input(Find influential TF module), Calculate peak-gene or peak-peak correlation(peakGeneCor module). And there are also some other useful function like integrate different source information, calculate jaccard similarity for your TF.

package bioconductor-findit2

Versions:

1.4.0-0,  1.0.0-0

Depends:

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicfeatures >=1.50.0,<1.51.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-multiassayexperiment >=1.24.0,<1.25.0

• bioconductor-qvalue >=2.30.0,<2.31.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• r-base >=4.2,<4.3.0a0

• r-dplyr

• r-ggplot2

• r-ggrepel

• r-glmnet

• r-patchwork

• r-progress

• r-purrr

• r-rlang

• r-stringr

• r-tibble

• r-tidyr

• r-withr

Required By:

Installation

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

conda install bioconductor-findit2

and update with:

conda update bioconductor-findit2

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-findit2:<tag>

(see bioconductor-findit2/tags for valid values for <tag>)

Download stats

Link to this page

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