Alternatives and similar repositories for orca

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

• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆79Updated last year
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆109Updated 2 years ago
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer link prediction
  ☆43Updated last week
• jzhoulab / puffin
  deep learning-inspired explainable sequence model for transcription initiation
  ☆96Updated 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…
  ☆67Updated 2 years ago
• ma-compbio / Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
  ☆89Updated last year
• kundajelab / chrombpnet
  Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)
  ☆179Updated 3 weeks ago
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆84Updated last week
• Hughes-Genome-Group / deepC
  A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence
  ☆33Updated last year
• VRam142 / combinatorialHiC
  Scripts + resources for analyzing combinatorial Hi-C data
  ☆31Updated 5 years ago
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆75Updated 3 weeks ago
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆49Updated last month
• calico / scBasset
  Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.
  ☆98Updated 3 weeks ago
• zhoujt1994 / scHiCluster
  ☆68Updated 4 months ago
• mdozmorov / scHiC_notes
  Notes on single-cell Hi-C technologies, tools, and data
  ☆83Updated 11 months ago
• mostafavilabuw / EnformerAssessment
  ☆24Updated last year
• arnavmdas / epiphany
  ☆12Updated 2 years ago
• calico / baskerville
  Machine learning methods for DNA sequence analysis.
  ☆55Updated last month
• yal054 / epiformer
  ☆26Updated 5 months ago
• Illumina / PromoterAI
  ☆77Updated 3 months ago
• wassermanlab / ExplaiNN
  ExplaiNN: interpretable and transparent neural networks for genomics
  ☆49Updated 6 months ago
• xryanglab / RiboMiner
  a toolset for mining multi-dimensional features of the translatome with ribosome profiling data
  ☆18Updated 2 months ago
• de-Boer-Lab / random-promoter-dream-challenge-2022
  ☆32Updated 8 months ago
• ketringjoni / SuPreMo
  Pipeline for generating reference and perturbed sequences for input into predictive models.
  ☆11Updated 10 months ago
• JinLabBioinfo / HiCorr
  HiCorr: a Hi-C data bias-correction pipeline
  ☆29Updated 6 months ago
• buenrostrolab / scPrinter
  ☆49Updated last week
• genialis / RNAnorm
  Normalization of RNA-seq gene expression
  ☆100Updated 2 months ago
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆30Updated 8 months ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆61Updated 6 months ago
• vagarwal87 / saluki_paper
  Saluki, a method to predict mRNA half-lives from sequence
  ☆25Updated 2 years ago