Alternatives and similar repositories for cross-species-domain-adaptation

Users that are interested in cross-species-domain-adaptation are comparing it to the libraries listed below

• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆86Updated 2 months ago
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆88Updated last month
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆109Updated 2 years ago
• jzhoulab / puffin
  deep learning-inspired explainable sequence model for transcription initiation
  ☆99Updated 9 months ago
• de-Boer-Lab / random-promoter-dream-challenge-2022
  ☆34Updated 10 months ago
• wassermanlab / ExplaiNN
  ExplaiNN: interpretable and transparent neural networks for genomics
  ☆49Updated 8 months ago
• kundajelab / DART-Eval
  ☆42Updated 4 months ago
• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆82Updated last year
• ketringjoni / SuPreMo
  Pipeline for generating reference and perturbed sequences for input into predictive models.
  ☆11Updated last year
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer link prediction
  ☆42Updated 2 months ago
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆53Updated last month
• ML4GLand / EUGENe
  Elucidating the Utility of Genomic Elements with Neural Nets
  ☆70Updated 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…
  ☆71Updated 2 years ago
• kundajelab / bpnet
  Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them
  ☆169Updated 2 months ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆65Updated 8 months ago
• jzhoulab / orca
  sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale
  ☆92Updated 9 months ago
• chengl7-lab / kmap
  A tool for visualising kmers in 2D space.
  ☆12Updated 9 months ago
• kundajelab / tfmodisco
  TF MOtif Discovery from Importance SCOres
  ☆161Updated last month
• FunctionLab / ExPecto
  predicting expression effects of human genome variants ab initio from sequence
  ☆132Updated 10 months ago
• Hughes-Genome-Group / deepC
  A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence
  ☆33Updated last year
• d-laub / basenji2-pytorch
  PyTorch implementation of Basenji2.
  ☆19Updated 7 months ago
• jzhoulab / puffin_manuscript
  ☆18Updated last year
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆32Updated 10 months ago
• liu-bioinfo-lab / EPCOT
  ☆25Updated 2 years ago
• johli / aparent
  APA Regression Net - Predict and Engineer Alternative Polyadenylation
  ☆40Updated 4 years ago
• vagarwal87 / Xpresso
  Predicting gene expression levels from genomic sequences
  ☆55Updated 5 years ago
• jmschrei / tangermeme
  Biological sequence analysis for the modern age.
  ☆257Updated last month
• mostafavilabuw / EnformerAssessment
  ☆25Updated last year
• calico / baskerville
  Machine learning methods for DNA sequence analysis.
  ☆57Updated 3 months ago
• ma-compbio / Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
  ☆92Updated last month