Alternatives and similar repositories for ProgrammingLab_I

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

• 1edv / evolution
  This repository contains the code for our manuscript - 'The evolution, evolvability, and engineering gene regulatory DNA'
  ☆94Updated last year
• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆35Updated 2 weeks ago
• kundajelab / DART-Eval
  ☆34Updated 2 weeks ago
• ni-lab / personalized-expression-benchmark
  Evaluating genomic sequence models for explaining personalized expression variation
  ☆19Updated last year
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer links prioritization
  ☆42Updated 5 months ago
• evanseitz / squid-nn
  surrogate quantitative interpretability for deepnets
  ☆21Updated last month
• ML4GLand / EUGENe
  Elucidating the Utility of Genomic Elements with Neural Nets
  ☆69Updated 5 months ago
• mcvickerlab / GenVarLoader
  Dataloader for applying sequence models to personalized genomics
  ☆25Updated this week
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆58Updated last month
• dslab-uniud / teaching
  Curated repository for all the teaching materials (courses, seminars, etc.) provided by the lab and its members.
  ☆8Updated last week
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆51Updated 3 weeks ago
• amberT15 / LLM_eval
  Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"
  ☆18Updated 10 months ago
• ychuest / Awesome-LLMs-meet-genomes
  Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in geno…
  ☆54Updated this week
• de-Boer-Lab / random-promoter-dream-challenge-2022
  ☆28Updated 3 months ago
• statbiophys / soNNia
  ☆15Updated last week
• VariantEffect / mavedb-api
  MaveDB API
  ☆13Updated this week
• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆36Updated 2 weeks ago
• ekernf01 / perturbation_benchmarking
  Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.
  ☆19Updated last month
• sib-swiss / pytorch-practical-training
  pratrical crash course on pytorch by reproducing some published biology-related deep-learning models
  ☆17Updated 5 months ago
• calico / borzoi
  RNA-seq prediction with deep convolutional neural networks.
  ☆149Updated last month
• d-laub / basenji2-pytorch
  PyTorch implementation of Basenji2.
  ☆15Updated 2 weeks ago
• altoslabs / perturbench
  ☆26Updated this week
• dohlee / chromoformer
  The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)
  ☆35Updated last year
• liu-bioinfo-lab / EPCOT
  ☆22Updated last year
• ihh / bilby
  Jax code for functional genomics ML
  ☆13Updated 2 months ago
• mostafavilabuw / EnformerAssessment
  ☆23Updated 8 months ago
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆102Updated 2 years ago
• ma-compbio / Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
  ☆86Updated 7 months ago
• gagneurlab / scooby
  scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.
  ☆23Updated last month
• PaccMann / TITAN
  Code for "T Cell Receptor Specificity Prediction with Bimodal Attention Networks" (https://doi.org/10.1093/bioinformatics/btab294, ISMB 2…
  ☆29Updated last year