Alternatives and similar repositories for EPInformer

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

• mostafavilabuw / EnformerAssessment
  ☆23Updated 9 months ago
• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆38Updated last week
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆56Updated last week
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆59Updated 2 months ago
• ni-lab / personalized-expression-benchmark
  Evaluating genomic sequence models for explaining personalized expression variation
  ☆20Updated last year
• jmschrei / dragonnfruit
  A method for analyzing scATAC-seq experiments.
  ☆30Updated 2 months ago
• shirondru / enformer_fine_tuning
  For fine-tuning Enformer using paired WGS & gene expression data
  ☆15Updated 3 weeks ago
• liu-bioinfo-lab / EPCOT
  ☆22Updated last year
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆40Updated this week
• bernardo-de-almeida / DeepSTARR
  Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…
  ☆63Updated 2 years ago
• mcvickerlab / GenVarLoader
  Dataloader for applying sequence models to personalized genomics
  ☆26Updated this week
• kundajelab / DART-Eval
  ☆34Updated last month
• de-Boer-Lab / random-promoter-dream-challenge-2022
  ☆28Updated 4 months ago
• ma-compbio / Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
  ☆87Updated 8 months ago
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆104Updated 2 years ago
• altoslabs / perturbench
  ☆26Updated last week
• 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…
  ☆39Updated last week
• wassermanlab / ExplaiNN
  ExplaiNN: interpretable and transparent neural networks for genomics
  ☆48Updated 2 months ago
• cantinilab / HuMMuS
  Molecular interactions inference from single-cell multi-omics data
  ☆24Updated 2 weeks ago
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆29Updated 4 months ago
• EngreitzLab / CRISPR_comparison
  Snakemake workflow for comparing E-G links to experimental data
  ☆18Updated this week
• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆75Updated 10 months ago
• EngreitzLab / scE2G
  Pipeline to run scE2G
  ☆26Updated this week
• MiraldiLab / maxATAC
  Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks
  ☆28Updated last month
• theislab / CFGen
  ☆16Updated last month
• jzhoulab / puffin_manuscript
  ☆17Updated 7 months ago
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆78Updated 3 weeks ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated last year
• FunctionLab / sei-manuscript
  Code for reproducing the Sei manuscript results
  ☆17Updated 3 years ago
• shtoneyan / gopher
  Toolset for training quantitative sequence to function models.
  ☆23Updated last year