recipe bioconductor-snplocs.hsapiens.dbsnp149.grch38

SNP locations for Homo sapiens (dbSNP Build 149)






SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 149. The source data files used for this package were created by NCBI between November 8-12, 2016, and contain SNPs mapped to reference genome GRCh38.p7 (a patched version of GRCh38 that doesn't alter chromosomes 1-22, X, Y, MT). Note that these SNPs can be "injected" in BSgenome.Hsapiens.NCBI.GRCh38 or in BSgenome.Hsapiens.UCSC.hg38.

package bioconductor-snplocs.hsapiens.dbsnp149.grch38

(downloads) docker_bioconductor-snplocs.hsapiens.dbsnp149.grch38



depends bioconductor-biocgenerics:


depends bioconductor-bsgenome:


depends bioconductor-data-packages:


depends bioconductor-genomeinfodb:


depends bioconductor-genomicranges:


depends bioconductor-iranges:


depends bioconductor-s4vectors:


depends curl:

depends r-base:




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-snplocs.hsapiens.dbsnp149.grch38

and update with::

   mamba update bioconductor-snplocs.hsapiens.dbsnp149.grch38

To create a new environment, run:

mamba create --name myenvname bioconductor-snplocs.hsapiens.dbsnp149.grch38

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull<tag>

(see `bioconductor-snplocs.hsapiens.dbsnp149.grch38/tags`_ for valid values for ``<tag>``)

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