recipe bioconductor-primirtss

A fast, convenient tool to identify the TSSs of miRNAs by integrating the data of H3K4me3 and Pol II as well as combining the conservation level and sequence feature, provided within both command-line and graphical interfaces, which achieves a better performance than the previous non-cell-specific methods on miRNA TSSs.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/primirTSS.html

License

GPL-2

Recipe

/bioconductor-primirtss/meta.yaml

package bioconductor-primirtss

(downloads) docker_bioconductor-primirtss

Versions

1.0.1-0

Depends bioconductor-biocgenerics

>=0.28.0,<0.29.0

Depends bioconductor-biostrings

>=2.50.0,<2.51.0

Depends bioconductor-bsgenome.hsapiens.ucsc.hg38

>=1.4.0,<1.5.0

Depends bioconductor-genomicranges

>=1.34.0,<1.35.0

Depends bioconductor-genomicscores

>=1.6.0,<1.7.0

Depends bioconductor-gviz

>=1.26.0,<1.27.0

Depends bioconductor-iranges

>=2.16.0,<2.17.0

Depends bioconductor-jaspar2018

>=1.1.0,<1.2.0

Depends bioconductor-phastcons100way.ucsc.hg38

>=3.7.0,<3.8.0

Depends bioconductor-rtracklayer

>=1.42.0,<1.43.0

Depends bioconductor-s4vectors

>=0.20.0,<0.21.0

Depends bioconductor-tfbstools

>=1.20.0,<1.21.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-dplyr

>=0.7.6

Depends r-purrr

>=0.2.5

Depends r-r.utils

>=2.6.0

Depends r-shiny

>=1.0.5

Depends r-stringr

>=1.3.1

Depends r-tibble

>=1.4.2

Depends r-tidyr

>=0.8.1

Requirements

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-primirtss

and update with:

conda update bioconductor-primirtss

or use the docker container:

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

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