- recipe bioconductor-metaseqr2
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
- Homepage:
https://bioconductor.org/packages/3.20/bioc/html/metaseqR2.html
- License:
GPL (>= 3)
- Recipe:
Provides an interface to several normalization and statistical testing packages for RNA-Seq gene expression data. Additionally, it creates several diagnostic plots, performs meta-analysis by combinining the results of several statistical tests and reports the results in an interactive way.
- package bioconductor-metaseqr2¶
- versions:
1.18.0-0,1.10.0-1,1.10.0-0,1.6.1-1,1.6.1-0,1.6.0-0,1.4.0-1,1.4.0-0,1.2.0-1,1.18.0-0,1.10.0-1,1.10.0-0,1.6.1-1,1.6.1-0,1.6.0-0,1.4.0-1,1.4.0-0,1.2.0-1,1.2.0-0,1.0.11-0- depends bioconductor-absseq:
>=1.60.0,<1.61.0- depends bioconductor-absseq:
>=1.60.0,<1.61.0a0- depends bioconductor-biobase:
>=2.66.0,<2.67.0- depends bioconductor-biobase:
>=2.66.0,<2.67.0a0- depends bioconductor-biocgenerics:
>=0.52.0,<0.53.0- depends bioconductor-biocgenerics:
>=0.52.0,<0.53.0a0- depends bioconductor-biocparallel:
>=1.40.0,<1.41.0- depends bioconductor-biocparallel:
>=1.40.0,<1.41.0a0- depends bioconductor-biomart:
>=2.62.0,<2.63.0- depends bioconductor-biomart:
>=2.62.0,<2.63.0a0- depends bioconductor-biostrings:
>=2.74.0,<2.75.0- depends bioconductor-biostrings:
>=2.74.0,<2.75.0a0- depends bioconductor-deseq2:
>=1.46.0,<1.47.0- depends bioconductor-deseq2:
>=1.46.0,<1.47.0a0- depends bioconductor-dss:
>=2.54.0,<2.55.0- depends bioconductor-dss:
>=2.54.0,<2.55.0a0- depends bioconductor-edaseq:
>=2.40.0,<2.41.0- depends bioconductor-edaseq:
>=2.40.0,<2.41.0a0- depends bioconductor-edger:
>=4.4.0,<4.5.0- depends bioconductor-edger:
>=4.4.0,<4.5.0a0- depends bioconductor-genefilter:
>=1.88.0,<1.89.0- depends bioconductor-genefilter:
>=1.88.0,<1.89.0a0- depends bioconductor-genomeinfodb:
>=1.42.0,<1.43.0- depends bioconductor-genomeinfodb:
>=1.42.0,<1.43.0a0- depends bioconductor-genomicalignments:
>=1.42.0,<1.43.0- depends bioconductor-genomicalignments:
>=1.42.0,<1.43.0a0- depends bioconductor-genomicfeatures:
>=1.58.0,<1.59.0- depends bioconductor-genomicfeatures:
>=1.58.0,<1.59.0a0- depends bioconductor-genomicranges:
>=1.58.0,<1.59.0- depends bioconductor-genomicranges:
>=1.58.0,<1.59.0a0- depends bioconductor-iranges:
>=2.40.0,<2.41.0- depends bioconductor-iranges:
>=2.40.0,<2.41.0a0- depends bioconductor-limma:
>=3.62.0,<3.63.0- depends bioconductor-limma:
>=3.62.0,<3.63.0a0- depends bioconductor-qvalue:
>=2.38.0,<2.39.0- depends bioconductor-qvalue:
>=2.38.0,<2.39.0a0- depends bioconductor-rsamtools:
>=2.22.0,<2.23.0- depends bioconductor-rsamtools:
>=2.22.0,<2.23.0a0- depends bioconductor-rtracklayer:
>=1.66.0,<1.67.0- depends bioconductor-rtracklayer:
>=1.66.0,<1.67.0a0- depends bioconductor-s4vectors:
>=0.44.0,<0.45.0- depends bioconductor-s4vectors:
>=0.44.0,<0.45.0a0- depends bioconductor-summarizedexperiment:
>=1.36.0,<1.37.0- depends bioconductor-summarizedexperiment:
>=1.36.0,<1.37.0a0- depends bioconductor-survcomp:
>=1.56.0,<1.57.0- depends bioconductor-survcomp:
>=1.56.0,<1.57.0a0- depends bioconductor-txdbmaker:
>=1.2.0,<1.3.0- depends bioconductor-txdbmaker:
>=1.2.0,<1.3.0a0- depends bioconductor-vsn:
>=3.74.0,<3.75.0- depends bioconductor-vsn:
>=3.74.0,<3.75.0a0- depends libblas:
>=3.9.0,<4.0a0- depends libgcc:
>=13- depends liblapack:
>=3.9.0,<4.0a0- depends r-base:
>=4.4,<4.5.0a0- depends r-corrplot:
- depends r-dt:
- depends r-gplots:
- depends r-harmonicmeanp:
- depends r-heatmaply:
- depends r-htmltools:
- depends r-httr:
- depends r-jsonlite:
- depends r-lattice:
- depends r-locfit:
- depends r-log4r:
- depends r-magrittr:
- depends r-mass:
- depends r-matrix:
- depends r-nbpseq:
- depends r-pander:
- depends r-rmarkdown:
- depends r-rmdformats:
- depends r-rsqlite:
- depends r-stringr:
- depends r-venndiagram:
- depends r-yaml:
- depends r-zoo:
- requirements:
- additional platforms:
Installation
You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).
While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.
Given that you already have a conda environment in which you want to have this package, install with:
mamba install bioconductor-metaseqr2 and update with:: mamba update bioconductor-metaseqr2
To create a new environment, run:
mamba create --name myenvname bioconductor-metaseqr2
with
myenvnamebeing a reasonable name for the environment (see e.g. the mamba docs for details and further options).Alternatively, use the docker container:
docker pull quay.io/biocontainers/bioconductor-metaseqr2:<tag> (see `bioconductor-metaseqr2/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-metaseqr2/README.html)
