Question: Problem locating SNP by rsID for SNPlocs.Hsapiens.dbSNP.20120608 package
gravatar for Christina Chaivorapol
6.9 years ago by
Christina Chaivorapol40 wrote:
Hi, Has anyone ever had a case where a SNP was not found in SNPlocs.Hsapiens.dbSNP.20120608, but is found in dbSNP 137? I am having this problem with SNP rs7775397. > library(SNPlocs.Hsapiens.dbSNP.20120608) > rsidsToGRanges('rs7775397') Thanks, Christina > sessionInfo() R version 2.15.2 (2012-10-26) Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=C LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] datasets utils grDevices graphics stats methods base other attached packages: [1] SNPlocs.Hsapiens.dbSNP.20120608_0.99.8 [2] BSgenome_1.26.1 [3] Biostrings_2.26.2 [4] GenomicRanges_1.10.5 [5] IRanges_1.16.4 [6] BiocGenerics_0.4.0 loaded via a namespace (and not attached): [1] parallel_2.15.2 stats4_2.15.2 -- Christina Chaivorapol, Ph.D. Genentech, Inc. Bioinformatics & Computational Biology [[alternative HTML version deleted]]
snp snplocs • 586 views
ADD COMMENTlink written 6.9 years ago by Christina Chaivorapol40
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