Visualisation of SNPs in R

Question

[Colari19]

Does anyone have any suggestions of how best to visualise SNP locations in relation to their nearest gene? Is there a standard way of doing this? Any good bioconductor packages available?

I have a list of cis-eQTL SNPs along with their target genes (eGenes). I'd like to draw the location of the eQTL in relation to its eGene.

Thank you.

Answer 1

[cpad0112]

see if this vignette makes sense to you: https://bioconductor.org/packages/release/bioc/vignettes/trackViewer/inst/doc/trackViewer.html

Refer to lolliplot section in the vignette @ Colari19

[Colari19]

Thank you, this is exactly the kind of thing I'm after.