We found the following 4 published projects which all share the keyword command-line amongst their description of software or software methods used.

Title
Analysis of snRNAseq data of muscle samples from patients with muscular diseases
Formal Verification and Synthesis of Stochastic Systems
Genetic studies of liver disease
Wellcome Investigator Award: Disentangling relationships between genotype and phenotype in complex genetic disorders, with particular application to liver and kidney disease