Integration of a few BioModels (ML models)

[anuprulez]

BioModels: It is a repository of mathematical models of biological and biomedical systems. It hosts a vast selection of existing literature-based physiologically and pharmaceutically relevant mechanistic models in standard formats.

Following is a list of ML models from BioModels that can be integrated into Galaxy as separate tools. The first model (BIOMD0000001066) has already been integrated into Galaxy Europe. A few helpful links have been provided to assist further development.

• BIOMD0000001066

  • Tool's XML: https://github.com/bgruening/galaxytools/blob/master/tools/biomodelsML/biomodels_BIOMD0000001066.xml
  • The running tool in Galaxy: https://usegalaxy.eu/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fbiomodels_biomd0000001066%2Fbiomodels_biomd0000001066%2F1&version=latest
  • The underlying Docker file: https://github.com/anuprulez/biomodelsml-docker/tree/master/rf_immune_checkpoints_blockage
  • Docker container on Hub: https://hub.docker.com/repository/docker/anupkumar/biomd0000001066/general
  • This is the PR for adding such a tool: Integration of RF model to predict efficacy of immune checkpoint blockade (BioModels) #1355

• MODEL2310150001

• BIOMD0000001069 (by Nils Hoffmann?)

• BIOMD0000001073

• BIOMD0000001074

• BIOMD0000001076

• Complete list of BioModels

ping @kxk302 @bgruening