recipe bioconductor-flames

FLAMES: Full Length Analysis of Mutations and Splicing in long read RNA-seq data

Homepage:

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

License:

GPL (>= 2)

Recipe:

/bioconductor-flames/meta.yaml

Semi-supervised isoform detection and annotation from both bulk and single-cell long read RNA-seq data. Flames provides automated pipelines for analysing isoforms, as well as intermediate functions for manual execution.

package bioconductor-flames

Versions:

1.3.4-0,  1.0.2-2,  1.0.2-1,  1.0.2-0,  0.99.31-0

Depends:

• bioconductor-bambu >=3.0.0,<3.1.0

• bioconductor-basilisk >=1.9.0,<1.10.0

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-complexheatmap >=2.14.0,<2.15.0

• 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-ggbio >=1.46.0,<1.47.0

• bioconductor-rhtslib >=2.0.0,<2.1.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-scater >=1.26.0,<1.27.0

• bioconductor-scran >=1.26.0,<1.27.0

• bioconductor-scuttle >=1.8.0,<1.9.0

• bioconductor-singlecellexperiment >=1.20.0,<1.21.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-zlibbioc >=1.44.0,<1.45.0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• libstdcxx-ng >=12

• r-base >=4.2,<4.3.0a0

• r-circlize

• r-cowplot

• r-dplyr

• r-ggplot2

• r-gridextra

• r-igraph

• r-magrittr

• r-matrix

• r-rcolorbrewer

• r-rcpp

• r-reticulate

• r-stringr

• r-tidyr

• r-withr

Required By:

Installation

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

conda install bioconductor-flames

and update with:

conda update bioconductor-flames

or use the docker container:

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

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

Download stats

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-flames/README.html)