Citation | Data Extraction Functions | Removal of technical variation | Algorithms for removing technical variation | Algorithm version 1 | Algorithm version 2 | Algorithm version 3 | Technical variation in the full UK Biobank NMR data | Technical variation in the phase 2 release of UK Biobank NMR data | Justification for algorithm version 2 updates | Methods for computing derived biomarkers and ratios after adjusting for biological variation

Introduction | System requirements and installation troubleshooting | OSX | Windows | Linux | Data required for a NetRep analysis | Tutorial data | Setting up the input lists | Running the permutation procedure to test module preservation | The module preservation statistics | Choosing the right statistics | Sparse networks | Directed networks | Sparse data | Proportional data | Homogenous modules | Small network modules | Visualising network modules | Tweaking the plot appearance | Plotting the individual components | Calculating the network properties of a module | Managing memory with large datasets | Using disk.matrix with the plotting functions | Running NetRep on a cluster | Setting the number of threads | Estimating wall time | Estimating memory usage | Optimising runtime