Alternatives and similar repositories for orca

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

• 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
• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆82Updated 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
• Hughes-Genome-Group / deepC
  A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence
  ☆33Updated last year
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer link prediction
  ☆42Updated 2 months ago
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆86Updated 2 months ago
• kundajelab / chrombpnet
  Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)
  ☆192Updated 3 months ago
• ma-compbio / Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
  ☆92Updated last month
• kundajelab / bpnet
  Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them
  ☆169Updated 2 months ago
• mdozmorov / scHiC_notes
  Notes on single-cell Hi-C technologies, tools, and data
  ☆86Updated last year
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆88Updated last month
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆53Updated last month
• calico / baskerville
  Machine learning methods for DNA sequence analysis.
  ☆57Updated 3 months ago
• wassermanlab / ExplaiNN
  ExplaiNN: interpretable and transparent neural networks for genomics
  ☆49Updated 8 months ago
• VRam142 / combinatorialHiC
  Scripts + resources for analyzing combinatorial Hi-C data
  ☆31Updated 6 years ago
• calico / scBasset
  Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.
  ☆99Updated 3 months ago
• Illumina / PromoterAI
  ☆81Updated 3 weeks ago
• zhoujt1994 / scHiCluster
  ☆69Updated 3 weeks ago
• yal054 / epiformer
  ☆26Updated 7 months ago
• genialis / RNAnorm
  Normalization of RNA-seq gene expression
  ☆102Updated 5 months ago
• mostafavilabuw / EnformerAssessment
  ☆25Updated last year
• JinLabBioinfo / HiCorr
  HiCorr: a Hi-C data bias-correction pipeline
  ☆29Updated 8 months ago
• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆103Updated 2 years ago
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆32Updated 10 months ago
• ketringjoni / SuPreMo
  Pipeline for generating reference and perturbed sequences for input into predictive models.
  ☆11Updated last year
• arnavmdas / epiphany
  ☆12Updated 2 years ago
• d-laub / basenji2-pytorch
  PyTorch implementation of Basenji2.
  ☆19Updated 7 months ago
• YeoLab / eCLIP
  ☆38Updated 3 years ago
• buenrostrolab / scPrinter
  ☆56Updated 2 months ago