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singa-all release 0.3.2

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@cleberecht cleberecht released this 15 Mar 14:53
· 508 commits to master since this release
0.3.2
e7b319b

Updates and features

Mathematics

  • added models implementations to store and move in grids of hexagons and rectangles
  • added grid based graphs, that keep nodes in grids that can be accessed with coordiantes

JavaFx

  • improved graph visualization with auto-layouting and possibility to drag nodes

Chemistry

  • UniProtParser now supports sequence annotations from ENA and subcellular location
  • added parsing of sequences from ENA

Simulation

  • increased numerical precision and improved stability in extreme cases
  • added module for passive membrane diffusion based on permeability
  • added possibility to log changes applied by each module
  • added SimulationManager for convenient simulation control and observation

Structure

  • added possibility to reduce mmtf structures (only parse certain chains or models)
  • added possibility to map structures from PFAM
  • added possibility to map EC Numbers to structures

Sequence (new)

  • added basic implementation for sequence alignments with Needleman-Wunsch, based on grid graphs

Installation

You can add all SiNGA to your project by adding the following dependency to your pom.xml.

<dependency>
    <groupId>de.bioforscher.singa</groupId>
    <artifactId>'artifact'</artifactId>
    <version>0.3.2</version>
</dependency>
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