Alternatives and similar repositories for basenji2-pytorch

Users that are interested in basenji2-pytorch are comparing it to the libraries listed below

• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆59Updated last week
• ni-lab / personalized-expression-benchmark
  Evaluating genomic sequence models for explaining personalized expression variation
  ☆20Updated last year
• 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
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer links prioritization
  ☆43Updated 7 months ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆60Updated 2 months ago
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆80Updated 2 weeks ago
• jzhoulab / puffin_manuscript
  ☆17Updated 8 months ago
• jzhoulab / puffin
  deep learning-inspired explainable sequence model for transcription initiation
  ☆94Updated 3 months ago
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆105Updated 2 years ago
• shirondru / enformer_fine_tuning
  For fine-tuning Enformer using paired WGS & gene expression data
  ☆17Updated last month
• de-Boer-Lab / random-promoter-dream-challenge-2022
  ☆29Updated 4 months ago
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆44Updated this week
• wassermanlab / ExplaiNN
  ExplaiNN: interpretable and transparent neural networks for genomics
  ☆48Updated 2 months ago
• GET-Foundation / get_model
  A modular framework for multimodal cross-cell-type transcriptional regulation models
  ☆79Updated 2 months ago
• liu-bioinfo-lab / EPCOT
  ☆22Updated last year
• ma-compbio / Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
  ☆86Updated 8 months ago
• mostafavilabuw / EnformerAssessment
  ☆23Updated 10 months ago
• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆75Updated 11 months ago
• shtoneyan / gopher
  Toolset for training quantitative sequence to function models.
  ☆23Updated last year
• FunctionLab / sei-manuscript
  Code for reproducing the Sei manuscript results
  ☆17Updated 3 years ago
• chengl7-lab / kmap
  A tool for visualising kmers in 2D space.
  ☆9Updated 4 months ago
• calico / baskerville
  Machine learning methods for DNA sequence analysis.
  ☆47Updated last week
• mcvickerlab / GenVarLoader
  Dataloader for applying sequence models to personalized genomics
  ☆26Updated last week
• calico / borzoi
  RNA-seq prediction with deep convolutional neural networks.
  ☆157Updated 2 weeks ago
• seqcode / cross-species-domain-adaptation
  Codebase for the domain adaptation (cross-species TF binding prediction) project.
  ☆12Updated 2 years ago
• kundajelab / DART-Eval
  ☆34Updated last month
• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆38Updated this week
• Papatheodorou-Group / BENGAL
  Nextflow pipeline for cross-species integration and assessment of single cell RNA-seq datasets
  ☆39Updated last year
• arnavmdas / epiphany
  ☆12Updated 2 years ago
• CraigIDent / SpliSER
  Bioinformatic tool for Splice site Strength Estimation using RNA-seq
  ☆16Updated 2 weeks ago