A dataset containing annotation information for 20 SNPs, including 10 regular SNPs and 10 indels. This data provides genomic positions and allele information.
Format
A data frame with 20 rows and 5 columns:
- Probe.Set.ID
Character. SNP identifier matching probeset_id
- Chromosome
Character. Chromosome location (1-22, X)
- Physical.Position
Integer. Base pair position on chromosome
- Allele.A
Character. First allele (deletion marker "-" for indels)
- Allele.B
Character. Second allele (insertion sequence for indels)
Details
For standard SNPs (SNP1-SNP10): Allele.A and Allele.B contain single nucleotides. For indels (SNP11-SNP20): Allele.A contains "-" and Allele.B contains insertion sequence.
Examples
data(example_annotations)
head(example_annotations)
#> Probe.Set.ID Chromosome Physical.Position Allele.A Allele.B
#> 1 SNP1 9 35958693 T G
#> 2 SNP2 11 61564642 A C
#> 3 SNP3 19 99793111 A C
#> 4 SNP4 14 22319761 T G
#> 5 SNP5 16 41066538 A G
#> 6 SNP6 13 20182616 T C
# Check for indels
sum(example_annotations$Allele.A == "-")
#> [1] 10