Alternatives and similar repositories for ledidi

Users that are interested in ledidi are comparing it to the libraries listed below

• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆42Updated 3 months ago
• ihh / bilby
  Jax code for functional genomics ML
  ☆14Updated 7 months ago
• bowang-lab / Orthrus
  Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifical…
  ☆77Updated last month
• Genentech / iterative-perturb-seq
  Sequential Optimal Experimental Design of Perturbation Screens Guided by Multimodal Priors
  ☆40Updated last year
• TattaBio / DGEB
  Diverse Genomic Embedding Benchmark
  ☆47Updated last month
• 1edv / evolution
  This repository contains the code for our manuscript - 'The evolution, evolvability, and engineering gene regulatory DNA'
  ☆96Updated 2 years ago
• Genentech / regLM
  Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.
  ☆46Updated last year
• frederikkemarin / BEND
  Benchmarking DNA Language Models on Biologically Meaningful Tasks
  ☆125Updated 11 months ago
• 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
• DennisGankin / species-aware-DNA-LM
  Species-aware DNA language modeling
  ☆18Updated 2 years ago
• johli / scrambler
  Interpretation by Deep Generative Masking for Biological Sequences
  ☆37Updated 3 years ago
• usnistgov / lantern
  Interpretable genotype-phenotype landscape modeling
  ☆35Updated last year
• johli / seqprop
  Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor
  ☆50Updated last year
• eternagame / draw_rna
  Draw RNA secondary structures in python.
  ☆48Updated 3 months ago
• lucidrains / tf-bind-transformer
  A repository with exploration into using transformers to predict DNA ↔ transcription factor binding
  ☆86Updated 3 years ago
• brianhie / evolocity
  Evolutionary velocity with protein language models
  ☆94Updated last year
• dnbaker / bioseq
  Tokenizers and Machine Learning Models for biological sequence data
  ☆25Updated last year
• alchemab / bcr-repertoire-papers
  Collection of papers related to BCR repertoire analyses
  ☆18Updated 3 years ago
• kipoi / kipoiseq
  Standard set of data-loaders for training and making predictions for DNA sequence-based models.
  ☆82Updated last year
• kundajelab / DART-Eval
  ☆41Updated 2 months ago
• bowang-lab / BIONIC
  Biological Network Integration using Convolutions
  ☆62Updated last year
• google-research / proteinfer
  Deep networks for protein functional inference
  ☆177Updated 3 months ago
• eternagame / EternaBench
  Evaluating RNA structure prediction using diverse thermodynamic prediction tasks and high-throughput datasets.
  ☆17Updated 3 years ago
• eternagame / EternaFold
  Improving RNA structure prediction through multitask learning on diverse crowdsourced data.
  ☆62Updated last year
• Genentech / polygraph
  Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …
  ☆35Updated 6 months ago
• multimeric / Unipressed
  Comprehensive Python client for the Uniprot REST API
  ☆51Updated this week
• ekernf01 / perturbation_benchmarking
  Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.
  ☆19Updated 3 weeks ago
• modernatx / seqlike
  Unified biological sequence manipulation in Python
  ☆207Updated 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.
  ☆52Updated 6 years ago
• debbiemarkslab / MuE
  A package for making MuE observation models in Edward2.
  ☆13Updated 4 years ago