Skip to content
This repository

HTTPS clone URL

Subversion checkout URL

You can clone with HTTPS or Subversion.

Download ZIP

Wrapper around the ExportPred algorithm for predicting P. falciparum exported proteins

tree: dde9128d2d

Fetching latest commit…

Octocat-spinner-32-eaf2f5

Cannot retrieve the latest commit at this time

Octocat-spinner-32 lib
Octocat-spinner-32 test
Octocat-spinner-32 .document
Octocat-spinner-32 .gitignore
Octocat-spinner-32 Gemfile
Octocat-spinner-32 LICENSE.txt
Octocat-spinner-32 README.mkd
Octocat-spinner-32 Rakefile
Octocat-spinner-32 VERSION
Octocat-spinner-32 bio-exportpred.gemspec
README.mkd

= bio-exportpred

ExportPred is a computer program for predicting whether particular Plasmodium falciparum proteins are exported into the red blood cell cytosol during the intraerythrocytic stages. This biogem is a wrapper around the program, so that it can be interacted with programmatically.

http://bioinf.wehi.edu.au/exportpred/

Example usage:

positive_control = 'MAVSTYNNTRRNGLRYVLKRRTILSVFAVICMLSLNLSIFENNNNNYGFHCNKRHFKSLAEASPEEHNNLRSHSTSDPKKNEEKSLSDEINKCDMKKYTAEEINEMINSSNEFINRNDMNIIFSYVHESEREKFKKVEENIFKFIQSIVETY'
result = Bio::ExportPred::Wrapper.new.calculate(positive) #=> Bio::ExportPred::Result object
assert_equal true, result.signal?
assert result.predicted_rle?

== Contributing to bio-exportpred

  • Check out the latest master to make sure the feature hasn't been implemented or the bug hasn't been fixed yet
  • Check out the issue tracker to make sure someone already hasn't requested it and/or contributed it
  • Fork the project
  • Start a feature/bugfix branch
  • Commit and push until you are happy with your contribution
  • Make sure to add tests for it. This is important so I don't break it in a future version unintentionally.
  • Please try not to mess with the Rakefile, version, or history. If you want to have your own version, or is otherwise necessary, that is fine, but please isolate to its own commit so I can cherry-pick around it.

== Copyright

Copyright (c) 2012 Ben J Woodcroft. See LICENSE.txt for further details.

Something went wrong with that request. Please try again.