- Support for human Ensembl IDs in gene lists - Support for human and mouse Entrez IDs in gene lists - Upgrade to PathwayCommons v12 - All input genes are now present in the GeneWalk network as long as they have GO annotations, irrespective of their gene-gene connectivity (previously only genes that had other direct gene connections were included in the network). - Fix the calculation of the 95% confidence interval around mean p-adjust (does not affect the mean value reported with prior versions). - In case of numerical underflow for p values, a default minimum of 1e-16 is set. - Add `--version` argument to CLI to print version - Add `--random_seed` argument to CLI to reproduce prior results - Compatibility updates to support networkx 2.4+ - Automated testing on TravisCI
1.1.0
- Improved parallelization scheme implemented in `genewalk.deepwalk`, used when `nproc` > 1 - Default number of repeats (`nreps_graph`, `nreps_null`) set to 3 - Extended README with documentation, funding and citation