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UniRep-analysis
UniRep-analysis PublicAnalysis and figure code from Alley et al. 2019.
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low-N-protein-engineering
low-N-protein-engineering PublicCode and data to reproduce analyses in Biswas et al. (2020) "Low-N protein engineering with data-efficient deep learning".
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Deep_diversification_AAV
Deep_diversification_AAV PublicBioinformatics code for paper associated with deep diversification of AAV
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AAV_fitness_landscape
AAV_fitness_landscape PublicAnalysis for "Comprehensive fitness landscape of AAV capsid reveals a viral gene and enables machine-guided design"
Repositories
- Deep_diversification_AAV Public
Bioinformatics code for paper associated with deep diversification of AAV
- aav_rep_scan Public
Contains code used to generate oligonucleotides for AAV2 rep scanning saturation mutagenesis library and to analyze resulting NGS data. Also includes code used to generate all figures in "Comprehensive mutagenesis maps the effect of all single codon mutations in the AAV2 rep gene on AAV production".
- etfl Public Forked from EPFL-LCSB/etfl
ETFL: A formulation for flux balance models accounting for expression, thermodynamics, and resource allocation constraints
