Software

scBONITA: single-cell Boolean Omics Network Invariant Time Analysis

GitHub repository: https://github.com/muktapalshikar/scBONITA

• uses scRNA-seq data to infer Boolean regulatory rules for topologically characterized networks
• prioritizes genes based on their impact on signaling
• performs pathway analysis, and
• maps sequenced cells to characteristic signaling states of these networks

WikiNetworks: Process pathways from the WikiPathways database into machine-readable network representations

GitHub repository: https://github.com/muktapalshikar/WikiNetworks

BONITA: Boolean rules and pathway analysis on bulk omics data

GitHub repositories: BONITA - Python3, BONITA - Python2

moBONITA: Boolean rules and pathway analysis on multiomics data

Coming soon

STREGA-NONA: Single-cell Transcriptomics Reveal Extended Gene-set Associations in Networks Optimized with a geNetic Algorithm

Coming soon