LDplot using a matrix in R
I have a matrix of LD values for different sites.
https://ibb.co/eaURxQ
I would like to get a LD plot like these:
https://ibb.co/cqAzHQ or
https://ibb.co/mqqYcQ
I want the color shades to depict the numbers but the numbers do not need to be present. Is there a way to do this in R. I looked up the LDheatmap package but it looks like it does its own calculation and I cannot figure out a way to just use matrix as an input.
Thanks for any help.
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
I need to visualize the correlation in better way
written by mrashad
-
tsv file genome coverage
written by kimkes25 •
-
GATK somatic CNV results
written by cocchi.e89
-
how to use plink to get all the SNP LD score > 0.8 in matrix format?
written by yuhangchen0802 •
-
How to make boxplot of two-way anova factors using ggplot2
written by Kumar
-
Interpretation of full LD between extremely distant SNPs
written by serpalma.v •
-
How to plot a matrix with numbers in the matrix colored using ggplot2 or other ways in R?
written by DanielC
-
Obtain the LD matrix from a list of SNP
written by janhuang.cn
-
How to use 1000 Genomes data for LDheatmap package in R
written by mqzhu •
-
Ldheatmap Does Not Include All Snps In The Analysis (Tri-Allelic Snp Excluded)
written by Agatha •
