get_mouse_tissue_devel_tbl: Wrapper function to import pre-processed vast-tool analysis...

In Ni-Ar/niar: Nice Interactive Analysis with R

Wrapper function to import pre-processed vast-tool analysis tables of Mouse Development ENCODE data.

Description

Wrapper function to import pre-processed vast-tool analysis tables of Mouse Development ENCODE data.

Usage

get_mouse_tissue_devel_tbl(
  inclusion_tbl = NULL,
  vst_expression_tbl = NULL,
  metadata_path = NULL,
  ensembl_gene_id,
  vst_id,
  filter_tbl = TRUE
)

Arguments

inclusion_tbl	Path to vast-tools inclusion table that contains a vst_id event. Use default (NULL) to use pre-defined PSI table.
vst_expression_tbl	Path to a vast-tools expression table (either cRPKM or TPM) that contains a ensembl_gene_id gene. Use default (NULL) to use pre-defined normalised TPMs table.
metadata_path	A path to a metadata table. Use default (NULL) to use pre-defined metadata table.
ensembl_gene_id	A valid Mouse ENSEMBL gene ID.
vst_id	A valid Mouse Vast-tools ID.
filter_tbl	Whether you want the full table to the filtered one with all the data.

Value

A tibble

See Also

plot_mouse_tissue_devel()

Examples

# Get Pax6 gene expression and Pax6 exon 6 PSI across mouse tissues development.
get_mouse_tissue_devel_tbl(ensembl_gene_id = "ENSMUSG00000027168", vst_id = "MmuEX0033804") 

Ni-Ar/niar documentation built on Feb. 3, 2025, 9:25 a.m.