README.md
# FSK-Lab repository
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This project contains the PMM-Lab and FSK-Lab extension plugins to the data
analytics software KNIME (www.knime.org). They are developed at the Federal
Institute for Risk Assessment in Germany (BfR).
## FSK-Lab
FSK-Lab is an open source extension plugin to the Konstanz Information Miner
(KNIME). FSK-Lab enables KNIME users to work with FSK models within KNIME.
### Installation
FSK-Lab may be installed throught the update site <https://gitlab.bfr.berlin/silebat/repositories/raw/master/fsklab/>. More information about the installation can be found at the [Food Risk Labs website](https://foodrisklabs.bfr.bund.de/fsk-lab-installation/)
### Nodes
-  FSK Creator
-  FSK Runner
-  FSK to R
-  FSKX Reader
-  FSKX Writer
-  FSK Editor
-  FSK to metadata
### Project hierarchy
The project hierarchy is described in the [wiki](https://github.com/SiLeBAT/FSK-Lab/wiki/Project-hierarchy).
### Changelog
Changelog is available at [changelog.md](features/de.bund.bfr.knime.fsklab.feature/CHANGELOG.md).
## PMM-Lab
Predictive Microbial Modeling Lab (PMM-Lab) is an open source extension to the Konstanz Information Miner (KNIME). PMM-Lab aims to ease and standardize the statistical analysis of experimental microbial data and the development of predictive microbial models (PMM).
It consists of three components:
- a library of KNIME nodes (called PMM-Lab)
- a library of "standard" workflows
- a HSQL databaase to store experimental data and microbial models
### Installation
PMM-Lab may be installed using the FSK-Lab update site <https://gitlab.bfr.berlin/silebat/repositories/raw/master/fsklab/>. More information about the installation can be found at the [Food Risk Labs website](https://foodrisklabs.bfr.bund.de/pmm-lab-installation/)
### Extension nodes
-  Converters
+  XML To Table
-  Editors
+  DB Data Deleter
+  Data Creator
+  Data Editor
+  Formula Creator
+  Model Creator
+  Model Editor
-  Model Fitting
+  Model Fitting
+  PMM Joiner
-  Readers
+  ComBase Reader
+  Data Reader
+  Formula Reader
+  Model Reader
+  NuML Reader
+ OpenFSMR Converter
+  PMFX Reader
+  SBML Reader
+ Variable Data Reader
+  XLS Data Reader
+  XLS Model Reader
-  Selectors & Viewers
+  Data Selection
+  Fitted Parameter View
+  Predictor View
+  Predictor View JS (deprecated)
+  Primary Model Selection
+  Secondary Model View
+  Secondary Predictor View
+  Tertiary Model Selection
-  Writers
+  ComBase Writer
+  Data Writer
+  Formula Writer
+  Model Writer
+  PMFX Writer
### Eclipse plugin projects:
- *com.jgoodies*
- *com.thoughtworks.xstream*
- *de.bund.bfr.formats*
- *de.bund.bfr.knime.pmm.bfrdbiface.lib*
- *de.bund.bfr.knime.pmm.common*
- *de.bund.bfr.knime.pmm.nodes*
- *de.bund.bfr.knime.pmm.sbml.test*
- *de.bund.bfr.knime.pmm.target*
- *de.bund.bfr.knime.pmm.tests*
- *de.bund.bfr.knime.pmmlab.update.p2*
- *de.bund.bfr.knime.pmmlab.update.p2.deploy*
- *JSBML_PMF*
- *net.sf.jabref*
- *org.freixas.jcalendar*
- *org.javers*
- *org.jdom2*
- *PMM_FEAT*
- *quick.dbtable*