Alternatives and similar repositories for enformer-tensorflow-sonnet-training-script

Users that are interested in enformer-tensorflow-sonnet-training-script are comparing it to the libraries listed below

• shtoneyan / gopher
  Toolset for training quantitative sequence to function models.
  ☆23Updated last year
• shwhalen / ml-pitfalls
  Notebooks accompanying the paper "Navigating the pitfalls of applying machine learning in genomics"
  ☆46Updated 2 years ago
• kundajelab / simdna
  A python library for creating simulated regulatory DNA sequences
  ☆39Updated 2 years ago
• calico / baskerville
  Machine learning methods for DNA sequence analysis.
  ☆57Updated 3 months ago
• ihh / bilby
  Jax code for functional genomics ML
  ☆14Updated 9 months ago
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆32Updated 10 months ago
• mostafavilabuw / EnformerAssessment
  ☆25Updated last year
• p-koo / evoaug
  Evolution-inspired data augmentations for PyTorch-based models for regulatory genomics
  ☆24Updated 6 months ago
• kundajelab / dfim
  Deep Feature Interaction Maps (DFIM)
  ☆53Updated 6 years ago
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer link prediction
  ☆42Updated 2 months ago
• netZoo / netbooks
  Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo methods..
  ☆45Updated last month
• gagneurlab / concise
  Concise: Keras extension for regulatory genomics
  ☆35Updated 2 years ago
• bernardo-de-almeida / DeepSTARR_embryo
  Deep learning models to predict enhancers in different Drosophila embryo tissues
  ☆19Updated 2 years ago
• statbiophys / SONIA
  Infer selection pressures on features of amino acid CDR3 sequences.
  ☆24Updated last year
• kipoi / kipoiseq
  Standard set of data-loaders for training and making predictions for DNA sequence-based models.
  ☆82Updated last year
• kieranrcampbell / clonealign
  Bayesian inference of clone-specific gene expression estimates by integrating single-cell RNA-seq and single-cell DNA-seq data
  ☆36Updated 4 years ago
• aristoteleo / Scribe-py
  Regulatory networks with Direct Information in python
  ☆40Updated 2 years ago
• neurogenomics / EnformerCelltyping
  Enformer Celltyping is a tensorflow, multi-headed attention based model that incorporates distal effects of Deoxyribonucleic Acid (DNA) i…
  ☆15Updated 5 months ago
• BIMSBbioinfo / maui
  Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkit
  ☆50Updated 2 years ago
• ML4GLand / SeqData
  Annotated sequence data
  ☆11Updated 10 months ago
• kundajelab / training_camp
  Genetics training camp
  ☆21Updated 5 years ago
• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆43Updated 5 months ago
• bendemeo / hopper
  Diverse sampling for single-cell datasets
  ☆16Updated 5 years ago
• pachterlab / picasso
  Picasso: a methods for embedding points in 2D in a way that respects distances while fitting a user-specified shape.
  ☆71Updated 2 months ago
• aristoteleo / dynast-release
  Inclusive and efficient quantification of labeling and splicing RNAs for time-resolved metabolic labeling based scRNA-seq experiments
  ☆19Updated 3 months ago
• SchubertLab / epytope
  ☆23Updated 8 months ago
• kundajelab / ProCapNet
  Repository for modeling PRO-cap data with the BPNet-like model, ProCapNet.
  ☆17Updated 3 months ago
• Alex-Rosenberg / split-seq-pipeline
  ☆10Updated 5 years ago
• vanheeringen-lab / ANANSE
  Prediction of key transcription factors in cell fate determination using enhancer networks. See full ANANSE documentation for detailed in…
  ☆87Updated last year
• Oshlack / splatter-paper
  Data and analysis for the Splatter paper
  ☆29Updated 8 years ago