ggrepel is an R package that provides geoms for ggplot2 to repel overlapping text labels:
Text labels repel away from each other, away from data points, and away from edges of the plotting area.
library(ggrepel) ggplot(mtcars, aes(wt, mpg, label = rownames(mtcars))) + geom_text_repel() + geom_point(color = 'red') + theme_classic(base_size = 16)
SNPSEA is a SNP Set Enrichment Algorithm to identify which cell types preferentially express the genes that are associated with a trait.Input files:
- A list of genome-wide significant SNP identifiers (e.g.
rs42) from a genome-wide association study (GWAS) on your preferred trait.
- A (NxM) matrix of gene expression values for all genes (N) across a large number (M) of cell types.
SNPSEA compares the trait-associated single-nucleotide polymorphisms (SNPs) to randomly sampled SNPs while accounting for linkage disequilibrium (LD). It's implemented in C++ with executables available for macOS or Linux.
Quickly turn a messy list of genes or SNPs into a tidy table with symbols, links, and identifiers.
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