Plot a pseudobulk HMM profile
plot_psbulk(
bulk,
use_pos = TRUE,
allele_only = FALSE,
min_LLR = 5,
min_depth = 8,
exp_limit = 2,
phi_mle = TRUE,
theta_roll = FALSE,
dot_size = 0.8,
dot_alpha = 0.5,
legend = TRUE,
exclude_gap = TRUE,
genome = "hg38",
text_size = 10,
raster = FALSE
)ggplot Plot of pseudobulk HMM profile
dataframe Pseudobulk profile
logical Use marker position instead of index as x coordinate
logical Only plot alleles
numeric LLR threshold for event filtering
numeric Minimum coverage depth for a SNP to be plotted
numeric Expression logFC axis limit
logical Whether to plot estimates of segmental expression fold change
logical Whether to plot rolling estimates of allele imbalance
numeric Size of marker dots
numeric Transparency of the marker dots
logical Whether to show legend
logical Whether to mark gap regions and centromeres
character Genome build, either 'hg38' or 'hg19'
numeric Size of text in the plot
logical Whether to raster images