Alternatives and similar repositories for engineered-riboregulator-ML

Users that are interested in engineered-riboregulator-ML are comparing it to the libraries listed below

• OATML / EVE
  Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…
  ☆65Updated 3 years ago
• songlab-cal / CPT
  Cross-protein transfer learning for variant effect prediction
  ☆20Updated 2 years ago
• TattaBio / DGEB
  Diverse Genomic Embedding Benchmark
  ☆47Updated last month
• TurtleTools / caretta
  A software-suite to perform multiple protein structure alignment and structure feature extraction.
  ☆31Updated 2 years ago
• johli / seqprop
  Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor
  ☆50Updated last year
• pjsample / human_5utr_modeling
  Modeling of human 5′ UTRs enables the design of new sequences for target levels of translation and 5′ UTR variant prediction.
  ☆53Updated 6 years ago
• allydunham / sequence_unet
  Fully convolutional deep learning variant effect predictor architecture
  ☆23Updated last year
• google-research / proteinfer
  Deep networks for protein functional inference
  ☆177Updated 4 months ago
• DennisGankin / species-aware-DNA-LM
  Species-aware DNA language modeling
  ☆18Updated 2 years ago
• ntranoslab / esm-variants
  ☆80Updated 2 years ago
• brianhie / evolocity
  Evolutionary velocity with protein language models
  ☆94Updated 2 years ago
• debbiemarkslab / EVmutation
  Mutation effects predicted from sequence co-variation
  ☆69Updated 8 years ago
• eternagame / EternaFold
  Improving RNA structure prediction through multitask learning on diverse crowdsourced data.
  ☆62Updated last year
• 1edv / evolution
  This repository contains the code for our manuscript - 'The evolution, evolvability, and engineering gene regulatory DNA'
  ☆96Updated 2 years ago
• eternagame / draw_rna
  Draw RNA secondary structures in python.
  ☆49Updated 3 months ago
• DasLab / RiboGraphViz
  Visualize global properties of large RNAs using GraphViz force-directed layout.
  ☆23Updated 2 years ago
• UCLOrengoGroup / cath-tools
  Protein structure comparison tools such as SSAP and SNAP
  ☆65Updated last year
• flatironinstitute / deepblast
  Neural Networks for Protein Sequence Alignment
  ☆129Updated 11 months ago
• idrblab / AnnoPRO
  Feature map and function annotation of Proteins
  ☆33Updated last year
• r2dt-bio / R2DT
  Visualise RNA secondary structure in consistent, reproducible and recognisable layouts
  ☆75Updated 2 months ago
• FPPGroup / CodonBERT
  CodonBert: a BERT-based architecture tailored for codon optimization using the cross-attention mechanism.
  ☆41Updated last year
• TattaBio / gLM2
  ☆70Updated last year
• graph-part / graph-part
  GraphPart, a data partitioning method for ML on biological sequences
  ☆30Updated last year
• smolkelab / promoter_design
  Promoter activity measurement and modeling; artificial promoter design and testing
  ☆13Updated 2 years ago
• davidhoover / DNAWorks
  Automatic oligonucleotide design for PCR-based gene synthesis
  ☆47Updated 6 years ago
• IdoSpringer / ERGO
  ERGO is a deep learing based model for predicting TCR-peptide binding.
  ☆18Updated 3 years ago
• lehner-lab / DMS2structure
  Scripts for "Determining protein structures using deep mutagenesis", Schmiedel & Lehner, Nature Genetics, 2019
  ☆17Updated 6 years ago
• churchlab / UniRep-analysis
  Analysis and figure code from Alley et al. 2019.
  ☆58Updated 2 years ago
• churchlab / low-N-protein-engineering
  Code and data to reproduce analyses in Biswas et al. (2020) "Low-N protein engineering with data-efficient deep learning".
  ☆59Updated 4 years ago
• kaistsystemsbiology / DeepProZyme
  DeepECtransformer
  ☆28Updated 2 years ago