Alternatives and similar repositories for borzoi-pytorch:

Users that are interested in borzoi-pytorch are comparing it to the libraries listed below

• mcvickerlab / GenVarLoader
  Dataloader for applying sequence models to personalized genomics
  ☆22Updated this week
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer links prioritization
  ☆35Updated 3 months ago
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆67Updated this week
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆36Updated last week
• wassermanlab / ExplaiNN
  ExplaiNN: interpretable and transparent neural networks for genomics
  ☆47Updated this week
• kundajelab / DART-Eval
  ☆27Updated last month
• de-Boer-Lab / random-promoter-dream-challenge-2022
  ☆26Updated 3 weeks ago
• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆24Updated 4 months ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆55Updated last month
• jzhoulab / puffin_manuscript
  ☆17Updated 3 months ago
• mostafavilabuw / EnformerAssessment
  ☆17Updated 6 months ago
• gagneurlab / scooby
  scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.
  ☆18Updated last month
• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆69Updated 7 months ago
• ni-lab / personalized-expression-benchmark
  Evaluating genomic sequence models for explaining personalized expression variation
  ☆19Updated last year
• shtoneyan / gopher
  Toolset for training quantitative sequence to function models.
  ☆21Updated 11 months ago
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆28Updated 3 weeks ago
• johli / aparent
  APA Regression Net - Predict and Engineer Alternative Polyadenylation
  ☆39Updated 3 years ago
• GET-Foundation / get_model
  A modular framework for multimodal cross-cell-type transcriptional regulation models
  ☆57Updated last week
• Genentech / polygraph
  Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …
  ☆28Updated last month
• mhorlacher / rbpnet
  ☆18Updated 10 months ago
• ekernf01 / perturbation_benchmarking
  Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.
  ☆17Updated last month
• jmschrei / dragonnfruit
  A method for analyzing scATAC-seq experiments.
  ☆26Updated 4 months ago
• calico / borzoi
  RNA-seq prediction with deep convolutional neural networks.
  ☆121Updated 2 months ago
• bernardo-de-almeida / DeepSTARR
  Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…
  ☆57Updated last year
• GfellerLab / MixMHC2pred
  HLA-II ligand predictor.
  ☆39Updated last year
• EngreitzLab / CRISPR_comparison
  Snakemake workflow for comparing E-G links to experimental data
  ☆13Updated this week
• Hughes-Genome-Group / deepC
  A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence
  ☆33Updated 9 months ago
• d-laub / basenji2-pytorch
  PyTorch implementation of Basenji2.
  ☆15Updated last year
• ma-compbio / Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
  ☆85Updated 4 months ago
• aertslab / CREsted
  CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…
  ☆31Updated this week