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Please note that this code has only been tested on a few platforms, and may not work "out of the box" on all systems. If you would like to be notified when a newer version of the source code becomes available, please join our mailing list. If you need help compiling or running our code, or if you find a bug, please contact us. Thanks!

Download Græmlin

Source code for Græmlin is licensed under the GNU Public License and is available here: graemlin-1.0.tar.gz. You can find the networks we used in the original Græmlin paper here: nets.tar.gz.

Download Græmlin 2.0

The source code to Græmlin 2.0 is licensed under the GNU Public License. You can download a copy here: graemlin-2.01.tar.gz.

You can download the files we used to train and test Græmlin 2.0 here: graemlin-2.0_test_files.tar.gz. Please note that any results you obtain using the training files will differ from those in the RECOMB paper because we used cross-validation to obtain the results in the RECOMB paper.

Changelog

2.01 graemlin-2.01.tar.gz

  • Resolved issues with compiling on certain platforms (e.g. Ubuntu 8.10 with GCC 4.1):
    ./alg/EqClassAssigner.h:79: error: `template<class Iterator> void EqClassAssigner::getCandidateClasses(const SimpleAlignment&, size_t, Iterator) const' cannot be overloaded
    ./alg/EqClassAssigner.h:65: error: with `template<class Iterator> void EqClassAssigner::getCandidateClasses(const SimpleAlignment&, NodeID, Iterator) const'
    ./alg/EqClassAssigner.tcc:19: error: redefinition of `void EqClassAssigner::getCandidateClasses(const SimpleAlignment&, size_t, Iterator) const'
    ./alg/EqClassAssigner.tcc:6: error: `void EqClassAssigner::getCandidateClasses(const SimpleAlignment&, NodeID, Iterator) const' previously declared here
    ...

2.0 (graemlin-2.0.tar.gz)

  • Initial release of Graemlin 2.

Download Græmlin 2.0 for local alignment

The local alignment algorithm used by Græmlin 2.0 is currently unpublished work. You must contact us before using it or results from it in any published work.

The source code for Græmlin 2.0 for local alignment is licensed under the GNU Public License. You can download a copy here: graemlin-2.0-local.tar.gz; you can download the files we used for training and testinghere: graemlin-2.0-local_test_files.tar.gz