get_anno_df: Extract counts with annotation data.frame from txi
In CharlesJB/rnaseq: Wrapper Functions for RNA-Seq Post-Processing

get_anno_df

R Documentation

Extract counts with annotation data.frame from txi

Description

Extract counts with annotation data.frame from txi

Usage

get_anno_df(txi, colname)

Arguments

`txi:`	The txi object returned from the 'import_kallisto' function
`table_name:`	The name of the count table to return. Tolerated values: * For raw counts: counts, raw_counts, count and raw_count * For TPM: abundance, TPM and tpm * For RUVg: ruvg_counts, ruvg, RUVg, RUV and ruv * For FPKM: fpkm and FPKM

Value

A 'data.frame' object.

Examples

abundances <- get_demo_abundance_files()
file_anno <- get_demo_anno_file()
txi <- import_kallisto(abundances, anno = file_anno)
raw_counts <- get_anno_df(txi, "raw_count")

CharlesJB/rnaseq documentation built on Oct. 17, 2023, 5:37 p.m.