4.2 - Schematic plots

Loading required data for plot

# Load results from previous sections
mae <- get(load("mae.rda"))
pair <- readr::read_csv("result/getPair.hypo.pairs.significant.csv")

Schematic plot

Schematic plot shows a brief view of linkages between genes and probes.

Nearby Genes

Generate schematic plot for one probe with 20 nearby genes and label the gene significantly linked with the probe in red.

schematic.plot(
  pair = pair, 
  data = mae,
  group.col = "definition",
  byProbe = pair$Probe[1],
  save = FALSE
)

The schematic plot shows probe colored in blue and the location of nearby 20 genes. The genes significantly linked to the probe were shown in red.

Nearby Probes

Generate schematic plot for one gene with the probes which the gene is significantly linked to.

schematic.plot(
  pair = pair, 
  data = mae,   
  group.col = "definition", 
  byGene = pair$GeneID[1],
  save = FALSE
)

The schematic plot shows the gene colored in red and all blue colored probes, which are significantly linked to the expression of this gene.