plot_model: Plot transcript_abundance object

In CshlSiepelLab/DENR: Deconvolution of Expression for Nascent RNA Sequencing Data

Description

plot transcripts and masks

Usage

plot_model(
  tq,
  gene_name = NULL,
  chrom = NULL,
  start = NULL,
  end = NULL,
  strand = NULL,
  bigwig_plus = NULL,
  bigwig_minus = NULL,
  ymax_bw = NULL,
  ymax_abundance = NULL,
  all_transcripts = TRUE
)

Arguments

tq	A transcript_quantifier-class object
gene_name	Name of your query gene. Only works if gene ids were given to the transcript_quantifier-class object
chrom	the chromosome of your query region (single value)
start	the start position of your query region (single value)
end	the end position of your query region (single value)
strand	the strand specificity of your query region (default: ANY)
bigwig_plus	the path to a bigwig for reads on the plus strand
bigwig_minus	the path to a bigwig for reads on the minus strand
ymax_bw	maximum value of y-axis for bw files when plotting
ymax_abundance	maximum value of y-axis for abundance when plotting
all_transcripts	whether to show all transcripts in the annotation track or only show one transcript per transcript model. default TRUE, which shows all transcripts.

Value

plotted tracks of transcripts and masks of your query gene

CshlSiepelLab/DENR documentation built on July 16, 2021, 10:42 p.m.