- recipe bioconductor-snplocs.hsapiens.dbsnp150.grch38
SNP locations for Homo sapiens (dbSNP Build 150)
SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 150. The source data files used for this package were created by NCBI between March 12-14, 2017, 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.dbsnp150.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:
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.dbsnp150.grch38 and update with:: mamba update bioconductor-snplocs.hsapiens.dbsnp150.grch38
To create a new environment, run:
mamba create --name myenvname bioconductor-snplocs.hsapiens.dbsnp150.grch38
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-snplocs.hsapiens.dbsnp150.grch38:<tag> (see `bioconductor-snplocs.hsapiens.dbsnp150.grch38/tags`_ for valid values for ``<tag>``)