SNIPR is a software to design single nucleotide specific programmable riboregulators that can be applied for precise gene regulation and molecular diagnostics.
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 built based on the oxDNA viewer (https://sulcgroup.github.io/oxdna-viewer/)developed by Micha and Erik in Sulc group, which is a nice software to visualize DNA structures.
- A statistical learning model based on convolutional neural network that predict RNA hybridization energy from sequence
A package to design DNA molecular circuit driven by enzyme.