calculate_overlap: Determines the overlap of predicted HLA binders with...

In richelbilderbeek/bbbq: The Bilderbeek Bianchi and Bogaart Question

Determines the overlap of predicted HLA binders with transmembrane helices for all HLA supertypes.

Description

Input: * tmh_9mers_as_data_filename * protein_lengths_filename

Usage

calculate_overlap(
  tmh_9mers_as_data_filename,
  protein_lengths_filename,
  tmh_overlapping_binders_as_data_filename
)

Arguments

tmh_9mers_as_data_filename	filename to store per TMH protein, the indices at which it is TMH, in R data format. for example 'work/tmh.9mers.Rdata'
protein_lengths_filename	filename to store the length of all proteins in proteome, for example 'work/protein-lengths.txt'
tmh_overlapping_binders_as_data_filename	filename to store per TMH overlapping binders in R data format. for example 'work/tmh-overlapping-binders.Rdata'

Details

Output: * tmh_overlapping_binders_as_data_filename

Author(s)

Richèl J.C. Bilderbeek, adapted from Johannes Textor

richelbilderbeek/bbbq documentation built on July 27, 2023, 2:15 a.m.