tmhmm

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R package for TMHMM [1].

Supported operating systems

• Linux
• Mac (future)
• Windows (never, as TMHMM does not support Windows)

Install

usethis::install_github("richelbilderbeek/tmhmm")

Install TMHMM to a default folder:

library(tmhmm)
install_tmhmm()

Usage

We need a FASTA file:

fasta_file <- system.file("extdata", "example.fas", package = "tmhmm")

Calling tmhmm_run will do the NetMHC2pan analysis:

df <- tmhmm_run(fasta_file)

The data frame df contains the results.

Notes to self

cat example.fasta  | /home/richel/.local/share/tmhmm-2.0c/bin/decodeanhmm.Linux_x86_64 -f /home/richel/.local/share/tmhmm-2.0c/lib/TMHMM2.0.options -modelfile /home/richel/.local/share/tmhmm-2.0c/lib/TMHMM2.0.model