View source: R/Dif_expression_plots.R
DTEG.plot | R Documentation |
For explanation of plot catagories, see DTEG.analysis
DTEG.plot(
dt,
output.dir = NULL,
p.value.label = 0.05,
plot.title = "",
plot.ext = ".pdf",
width = 6,
height = 6,
dot.size = 0.4,
xlim = "bidir.max",
ylim = "bidir.max",
relative.name = paste0("DTEG_plot", plot.ext)
)
dt |
a data.table with the results from |
output.dir |
a character path, default NULL(no save), or a directory to save to a file. Relative name of file, specified by 'relative.name' argument. |
p.value.label |
a numeric, default 0.05 in interval (0,1) or "" to not show. What p-value used for the analysis? Will be shown as a caption. |
plot.title |
title for plots, usually name of experiment etc |
plot.ext |
character, default: ".pdf". Alternatives: ".png" or ".jpg". |
width |
numeric, default 6 (in inches) |
height |
numeric, default 6 (in inches) |
dot.size |
numeric, default 0.4, size of point dots in plot. |
xlim |
numeric vector or character preset, default: "bidir.max" (Equal in both + / - direction, using max value + 0.5 of rna column in dt). If you want ggplot to decide limit, set to "auto". For numeric vector, specify min and max x limit: like c(-5, 5) |
ylim |
numeric vector or character preset, default: "bidir.max" (Equal in both + / - direction, using max value + 0.5 of rfp column in dt). If you want ggplot to decide limit, set to "auto". For numeric vector, specify min and max y limit: like c(-10, 10) |
relative.name |
character, Default: |
a ggplot object
Other DifferentialExpression:
DEG.plot.static()
,
DEG_model()
,
DTEG.analysis()
,
te.table()
,
te_rna.plot()
df <- ORFik.template.experiment()
df.rfp <- df[df$libtype == "RFP",]
df.rna <- df[df$libtype == "RNA",]
#dt <- DTEG.analysis(df.rfp, df.rna)
#Default scaling
#DTEG.plot(dt)
#Manual scaling
#DTEG.plot(dt, xlim = c(-2, 2), ylim = c(-2, 2))
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