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...The latest version includes the following toxicity prediction modules:
-Cramer rules (oral toxicity)
-Toxicity mode of action via Verhaar scheme
-Skin irritation and Eye irritation prediction
-Benigni / Bossa rulebase for mutagenicity and carcinogenicity prediction
-START biodegradation and persistence prediction
-Skin sensitisation reactivity domain
-Kroes TTC Decision tree
-SMARTCyp - Cytochrome P450-Mediated Drug Metabolism and metabolites prediction
-Structure Alerts for the in vivo micronucleus assay in rodents (ISSMIC)
-Structural Alerts for Functional Group Identification (ISSFUNC)
-Structural alerts associated with covalent protein binding and DNA binding.
- Ames mutagenicity
Toxtree provides a plugin framework to incorporate different approaches to the estimation. ...
...Please see the GitHub version:
https://github.com/cwarden45/COHCAP
This was the source repository for the Bioconductor version, with some changes after the decision to only provide the code through GitHub.
2) In addition to the original NAR paper, please see the following links:
Benchmarks: http://www.nature.com/protocolexchange/protocols/2965#/introduction
Protocol Exchange Files: http://sourceforge.net/projects/cohcap/files/Protocol_Exchange_Example.zip
3) Custom Annotation Files (including EPIC Array):
https://sourceforge.net/projects/cohcap/files/additional_Bioconductor_annotations.zip/download
C++ header only library with AI and bioinformatics algorithms
C++ header only library, small and fast; Naive Bayesian Classifier, Decision Tree Classifier (ID3), DNA/RNA nucleotide second structure predictor, timeseries management, timeseries prediction, generic Evolutionary Algorithm, generic Hill Climbing algorithm and others.
Alignment of the assembled sequences to a reference genome is a common way to obtain a likely order for the contigs, though most of times the final decision is taken by the user. We present the jContigSort, a tool that sorts the genome contigs.
HealthAgents is an open source web-based distributed decision support system (DSS)
which provides hospitals and organisations with a reliable tool to aid in the diagnosis of brain tumours and their prognosis aiming to avoid invasive surgical
procedures
GRIP is a clinical decision support system for controlling glucose levels in critically ill patients. GRIP may replace paper-based protocols for intensive insulin therapy and can use arbitrary complex rules to advise nurses on insulin doses.
Decision support tool that assesses breast cancer risk and identifies risk-reducing interventions. Includes web service implementations of established models -- BRCAPRO, Gail, Claus, BCSC Density -- for calculating breast cancer risk.