Description Usage Arguments Examples
This function transforms SNP data (virtual machine): limits analysis to specified biobanks, reads in genotype data in chunks, removes SNPs with missing values (multiple biobanks/technologies), removes SNPs with low minor allele frequency, fuses data from multiple biobanks/technologies
1 2 | get.snps.bbmri(chr, biobank = NULL, path = getwd(), size = 500 *
10^3)
|
chr |
chromosome: integer 1-22 |
biobank |
character "CODAM", "LL", "LLS", "NTR", "PAN", "RS", or NULL (all) |
path |
data directory |
size |
maximum number of SNPs to read in at once; trade-off between memory usage (low) and speed (high) |
1 | path <- "/virdir/Scratch/arauschenberger/trial"
|
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