recipe bioconductor-blima

Tools for the preprocessing and analysis of the Illumina microarrays on the detector (bead) level

Homepage

https://bioconductor.org/packages/3.11/bioc/html/blima.html

License

GPL-3

Recipe

/bioconductor-blima/meta.yaml

Links

biotools: blima, doi: 10.1038/nmeth.3252

Package blima includes several algorithms for the preprocessing of Illumina microarray data. It focuses to the bead level analysis and provides novel approach to the quantile normalization of the vectors of unequal lengths. It provides variety of the methods for background correction including background subtraction, RMA like convolution and background outlier removal. It also implements variance stabilizing transformation on the bead level. There are also implemented methods for data summarization. It also provides the methods for performing T-tests on the detector (bead) level and on the probe level for differential expression testing.

package bioconductor-blima

Versions

1.22.0-0, 1.20.0-0, 1.18.0-1, 1.16.0-0, 1.14.0-0, 1.12.0-0, 1.10.0-0

Depends

• bioconductor-beadarray >=2.38.0,<2.39.0

• bioconductor-biobase >=2.48.0,<2.49.0

• bioconductor-biocgenerics >=0.34.0,<0.35.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=7.3.0

• liblapack >=3.8.0,<3.9.0a0

• libstdcxx-ng >=7.3.0

• r-base >=4.0,<4.1.0a0

• r-rcpp >=0.12.8

Required By

Installation

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

conda install bioconductor-blima

and update with:

conda update bioconductor-blima

or use the docker container:

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

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

Link to this page

Render an badge with the following MarkDown:

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