1. SNIPR
SNIPR is a software to design single nucleotide specific programmable riboregulators that can be applied for precise gene regulation and molecular diagnostics.
2. CrowderOxDNA and CrowderDNAViewer
Crowder-oxDNA is a software package to study DNA interactions under crowded environment with molecular dynamics. CrowdeDNA Viewer is a web-based software used to visualize oxDNA simulation with crowding particles.
The crowder viewer is a branch of oxDNA viewer (https://sulcgroup.github.io/oxdna-viewer/), which is a nice software to visualize DNA structures.
3. RNANet
- A statistical learning model based on convolutional neural network that predict RNA hybridization energy from sequence
4. Molecular Programming Compliler
A package to design DNA molecular circuit driven by enzyme.
