write_goseq_data: Make a pretty table of goseq data in excel.

In elsayed-lab/hpgltools: A pile of (hopefully) useful R functions

Make a pretty table of goseq data in excel.

Description

It is my intention to make a function like this for each ontology tool in my repetoire

Usage

write_goseq_data(
  goseq_result,
  excel = "excel/goseq.xlsx",
  wb = NULL,
  add_trees = TRUE,
  gather_genes = TRUE,
  order_by = "qvalue",
  pval = 0.1,
  add_plots = TRUE,
  height = 15,
  width = 10,
  decreasing = FALSE,
  ...
)

Arguments

goseq_result	A set of results from simple_goseq().
excel	An excel file to which to write some pretty results.
wb	Workbook object to write to.
add_trees	Include topgoish ontology trees?
gather_genes	Make a table of the genes in each category? (This may be slow)
order_by	What column to order the data by?
pval	Choose a cutoff for reporting by p-value.
add_plots	Include some pvalue plots in the excel output?
height	Height of included plots.
width	and their width.
decreasing	In forward or reverse order?
...	Extra arguments are passed to arglist.

Value

The result from openxlsx in a prettyified xlsx file.

See Also

[openxlsx] [simple_goseq()]

elsayed-lab/hpgltools documentation built on May 9, 2024, 5:02 a.m.