wb_tx2g: Convert between transcript ID and gene ID

In AlexWeinreb/wbData: Download And Use WormBase Data

Convert between transcript ID and gene ID

Description

Convert between transcript ID and gene ID

Usage

wb_tx2g(tx, tx2g_tab, warn_missing = FALSE)

wb_g2tx(gene_id, tx2g_tab, warn_missing = FALSE, simplify = FALSE)

Arguments

tx	transcript IDs (e.g. MTCE.10).
tx2g_tab	Translation table generated with 'wb_load_tx2gene()'.
warn_missing	If TRUE, a warning is issued when an ID was not found.
gene_id	Wormbase gene ID (e.g. WBGene00000001).
simplify	If TRUE, attempts to simplify the results into a vector.

Details

These functions convert between different transcript and gene identifiers using a preloaded translation table.

Note that a gene can have several matching transcripts.

Value

The corresponding IDs, as a character vector for wb_tx2g, as a list for wb_g2tx. If 'simplify = TRUE', attempts to cast the result into a vector. This is not possible if the input genes do not have the same number of transcripts.

Examples

## Not run: 
  wb_tx2g(c("Y37A1A.28", "W10C8.12", "Y4C6A.2c", "F56D6.15", "D1086.11a.1"), tx2g_tab)
  wb_g2tx(c("WBGene00017981", "WBGene00045419", "mistake"), tx2g_tab, warn_missing = TRUE)

## End(Not run)

AlexWeinreb/wbData documentation built on April 3, 2025, 1:24 p.m.