- Technical report describing the data structure and methods for operating on screening data. PDF
- Open-source software for the standardized application of existing methods in liquid biopsy data analysis, supported by online catalogue of existing methods and data resources. PDF
- Open-source software CAUSEXPR, to prioritize likely causal mutations from genotype and gene expression. PDF
- Open-source software CAUSAMET and BIOMARK. PDF
- Technical report on approaches to outlier detection in patient ‘omics data. PDF
- Open-source software that implements causal stability ranking for high-dimensional genotype data. PDF
- Technical report on disease classification based on multilevel data integration. PDF
- Technical report and software for predictive modelling of drug response and detection of outlier samples. PDF
- Open-source software supporting the molecular tumour characterization pipeline and predicting perturbed pathways. PDF
- Technical report on new disease entities that were identified using novel statistical methods. PDF
- Open-source software implementing an updated version of Renjin that supports the major Bioconductor packages; a code library of benchmarks; and a technical report describing the most significant performance bottlenecks. PDF
- Technical report with evaluation of performance improvement or regression from D9.2. PDF
- Technical report with definitions and best practice guidelines; and software package for simulation of experimental design and choice of validation sites in cancer genomics. PDF
- Database of solved cases. PDF
- Open-source software implementing end-to-end analysis and integrating the results from T1.1-1.5. PDF
- Technical report on existing and novel methods. PDF
- Open-source software to estimate structured sparse models from multi-omics data. PDF
- Open-source software that implements tumour diversity time series analysis. PDF
- Technical report describing the design of re-capture platform for deep sequencing and validation. PDF
- Technical report on biomarkers analysed with transcriptome and metabolome data and technical report on novel pathomechanisms. PDF
- White paper describing software design principles and implementations; and open-source software implementation of SOUNDHub (annotation) and SOUNDData (experiment data) services and clients, with specific development of controlled and federated data access. PDF
- SOUNDData and SOUNDHub public data resources. PDF
- Open-source software implementing InteractiveReports for displaying and scripting reproducible workflows; and a software catalogue of standard templates for informed decision-making. PDF
- Website of Interactive Reports for select outcomes of WP2. PDF
- Software package for automated benchmarking. PDF