Fig. 1

Tool overview. When SCNS is first started, the user is presented with the ‘Load Data’ page, asking them to upload a .CSV file containing their single-cell gene expression data. a The state transition graph page, which allows visualisation of the data, selection of initial and target cell classes, and running of synthesis. b The analysis page, which shows the computed stable states of the synthesised model and allows combined overexpression/knockout perturbations to be run