makeContrastFilterSet: Make a complete set of filters for a contrast: the contrast...

In pinin4fjords/shinyngs: Shiny apps for NGS data

Make a complete set of filters for a contrast: the contrast itself, fold change, and where applicable p- and q- values.

Description

Make a complete set of filters for a contrast: the contrast itself, fold change, and where applicable p- and q- values.

Usage

makeContrastFilterSet(
  ns,
  ese,
  assay,
  contrasts,
  contrast_numbers,
  multiple,
  show_controls,
  default_foldchange = 2,
  default_pval = 0.05,
  default_qval = 0.1,
  index = "",
  filter_rows = TRUE,
  select_all_contrasts = FALSE
)

Arguments

ns	A namespace function (created with NS to be used in creating field IDs.
ese	ExploratorySummarizedExperiment object
assay	Assay in ese
contrasts	A list of lists specifying contrasts.
contrast_numbers	A named vector of indices corresponding to contrasts.
multiple	Allow multiple contrasts to be selected? Passed to makeContrastControl.
show_controls	Show controls? Setting to false will cause them to be hidden.
default_foldchange	Default value for the fold change field
default_pval	Default value for the p value field
default_qval	Default value for the q value field
index	Index. Will be used to differentiate mutiple copies of the field set.
filter_rows	Use fold change and p value etc to filter values?
select_all_contrasts	Select all contrasts by default?

Value

output An HTML tag object that can be rendered as HTML using as.character()

pinin4fjords/shinyngs documentation built on Jan. 18, 2025, 7:09 p.m.