54 citations · 54 across the 5 of their papers we have counts for
4 papers · 1 filter
manylp: reproducible, exact, and batched linear programming for genome-scale dynamic flux balance analysis
Fabio Cumbo
Dynamic flux balance analysis (dFBA) and its community, spatial and ensemble variants predict microbial metabolism by solving one linear program (LP) per species and time step, oft…
Logarithmic-scale variational quantum eigensolver for off-lattice protein structure prediction in continuous torsional angle space
Fabio Cumbo, Bryan Raubenolt, Varun Puram +3
Classical and current quantum approaches to protein structure prediction (QPSP) face limitations, notably massive qubit requirements restricting near-term models to simplistic on-l…
hdlib 2.0: Extending Machine Learning Capabilities of Vector-Symbolic Architectures
Fabio Cumbo, Kabir Dhillon, Daniel Blankenberg
Following the initial publication of hdlib, a Python library for designing Vector-Symbolic Architectures (VSA), we introduce a major extension that significantly enhances its machi…
An Automatic Pipeline for the Integration of Python-Based Tools into the Galaxy Platform: Application to the anvi'o Framework
Fabio Cumbo, Jayadev Joshi, Daniel Blankenberg
The integration of command-line tools into the Galaxy platform is crucial for making complex computational methods accessible to a broader audience and ensuring reproducible resear…