Displaying 4 results from an estimated 4 matches for "dbsnp".
2015 Apr 18
2
truncated warning messages
...sked?,
?BSgenome.Hsapiens.UCSC.hg18.masked?,
?BSgenome.Hsapiens.UCSC.hg19.masked?,
?BSgenome.Mmusculus.UCSC.mm9.masked?,
?BSgenome.Scerevisiae.UCSC.sacCer2?, ?BSgenome.Hsapiens.NCBI.GRCh38?,
?BSgenome.Rnorvegicus.UCSC.rn5?, ?drosophila2probe?, ?hgu95av2probe?,
?hgu95av2cdf?, ?SNPlocs.Hsapiens.dbSNP.20100427?,
?SNPlocs.Hsapiens.dbSNP.20101109?, ?SNPlocs.Hsapiens.dbSNP.20110815?,
?SNPlocs.Hsapiens.dbSNP141.GRCh38?,
?XtraSNPlocs.Hsapiens.dbSNP141.GRCh38?, ?org.Sc.sgd.db?, ?org.Mm.eg.db?,
?org.At.tair.db?, ?hom.Hs.inp.db?, ?GO.db?,
?TxDb.Hsapiens.UCSC.hg18.knownGene?,
?TxDb.Hsapiens.UCSC.hg...
2024 Nov 15
1
R coding to extract allele frequencies from NCBI for ALL alleles of one SNP?
...age biomaRt and searched via Google and Copilot- so far with no success. Many thanks.
remotes::install_github("ropensci/rsnps")
library("rsnps")
# Define the SNP ID
snp_id <- "rs11134679" ## this SNP has alleles A, C, G and T, but results are only for A
# Query the dbSNP database
result <- rsnps::ncbi_snp_query(snp_id)
result2 <- as.data.frame(result)
result2
result2$maf_population
[[alternative HTML version deleted]]
2011 Apr 13
1
strategy for writing out file with lines header initiated with comment sign
...;
##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency">
##INFO=<ID=AA,Number=1,Type=String,Description="Ancestral Allele">
##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP membership, build 129">
##INFO=<ID=H2,Number=0,Type=Flag,Description="HapMap2 membership">
##FILTER=<ID=q10,Description="Quality below 10">
##FILTER=<ID=s50,Description="Less than 50% of samples have data">
##FORMAT=<ID=GT,Number=1,Type=Str...
2010 Aug 20
0
Wanted :BioInformatics Scientist - Heavy "R" focus
...near models, machine learning, and other multivariate analysis
methods.
* Programming experience and ability to write R and Perl script.
* The candidate will have experience with large-scale genomics
data and a solid understanding of bioinformatics data bases (eg:
GenBank, RefSeq, dbSNP etc)
* Experience with some bioinformatics software such as:
Spotfire, Partek, Ingenuity, GeneGo, Balst, and Blat.
* The candidate will have the ability and interest in learning
new techniques and skills in accordance with evolving research program
needs.
* Candidates wit...