tpm_flagging: Flagging features depending on TPM value profile

In irilenia/baerhunter: Detection and Analysis of Expressed Intergenic Elements in Bacterial RNA-seq Data

Flagging features depending on TPM value profile

Description

A helper function to analyse each row of the TPM table. Each feature gets allocated a flag depending on the expression profile.

Usage

tpm_flagging(tpm_data, complete_annotation, output_file)

Arguments

tpm_data	A CSV file containing TPM values for each normalised feature in each sample.
complete_annotation	A GFF3 annotation file.
output_file	A string indicating the name of the output file.

Value

A Gff3 file, where a target feature type has an expression flag added to its attribute column.

irilenia/baerhunter documentation built on May 18, 2024, 11:56 p.m.