Alternatives and similar repositories for random-promoter-dream-challenge-2022

Users that are interested in random-promoter-dream-challenge-2022 are comparing it to the libraries listed below

• jzhoulab / puffin
  deep learning-inspired explainable sequence model for transcription initiation
  ☆98Updated 8 months ago
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆82Updated last month
• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆81Updated last year
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆85Updated last month
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆109Updated 2 years ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆64Updated 7 months ago
• wassermanlab / ExplaiNN
  ExplaiNN: interpretable and transparent neural networks for genomics
  ☆49Updated 7 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…
  ☆71Updated 2 years ago
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer link prediction
  ☆43Updated last month
• ketringjoni / SuPreMo
  Pipeline for generating reference and perturbed sequences for input into predictive models.
  ☆11Updated last year
• kundajelab / DART-Eval
  ☆42Updated 3 months ago
• Illumina / PromoterAI
  ☆80Updated 4 months ago
• jmschrei / tangermeme
  Biological sequence analysis for the modern age.
  ☆258Updated 3 weeks ago
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆52Updated 3 weeks ago
• kundajelab / chrombpnet
  Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)
  ☆186Updated 2 months ago
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆30Updated 9 months ago
• chengl7-lab / kmap
  A tool for visualising kmers in 2D space.
  ☆12Updated 8 months ago
• ML4GLand / EUGENe
  Elucidating the Utility of Genomic Elements with Neural Nets
  ☆70Updated 11 months ago
• shirondru / enformer_fine_tuning
  For fine-tuning Enformer using paired WGS & gene expression data
  ☆23Updated 2 months ago
• calico / baskerville
  Machine learning methods for DNA sequence analysis.
  ☆56Updated 2 months ago
• CompEpigen / methylbert
  A Transformer-based model for read-level DNA methylation pattern identification and tumour deconvolution
  ☆39Updated 8 months ago
• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆42Updated 4 months ago
• statbiophys / OLGA
  Compute generation probabilities of CDR3 amino acid and nucleotide sequences
  ☆62Updated last week
• vagarwal87 / Xpresso
  Predicting gene expression levels from genomic sequences
  ☆55Updated 5 years ago
• Danko-Lab / clipnet
  A deep learning approach to predicting transcription initiation from sequence at single nucleotide resolution
  ☆14Updated 3 weeks ago
• JamieHeather / stitchr
  Stitchr - a Python script to stitch together coding TCR nucleotide sequences from V, J, and CDR3 info
  ☆59Updated 2 months ago
• jzhoulab / puffin_manuscript
  ☆18Updated last year
• mostafavilabuw / EnformerAssessment
  ☆24Updated last year
• uio-bmi / immuneML
  immuneML is a platform for machine learning analysis of adaptive immune receptor repertoire data.
  ☆72Updated this week
• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆50Updated last week