Alternatives and similar repositories for bpnet:

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

• kundajelab / tfmodisco
  TF MOtif Discovery from Importance SCOres
  ☆135Updated last year
• kundajelab / chrombpnet
  Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)
  ☆151Updated 2 months ago
• FunctionLab / ExPecto
  predicting expression effects of human genome variants ab initio from sequence
  ☆127Updated 2 months ago
• calico / borzoi
  RNA-seq prediction with deep convolutional neural networks.
  ☆137Updated 2 weeks ago
• jmschrei / tangermeme
  Biological sequence analysis for the modern age.
  ☆213Updated 3 weeks ago
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆87Updated 5 years ago
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆100Updated 2 years ago
• broadinstitute / ABC-Enhancer-Gene-Prediction
  Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
  ☆219Updated last week
• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆74Updated 9 months ago
• jzhoulab / puffin
  deep learning-inspired explainable sequence model for transcription initiation
  ☆93Updated last month
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆143Updated last year
• slowkow / awesome-vdj
  📚 Tools and databases for analyzing HLA and VDJ genes.
  ☆219Updated 4 months ago
• deeptools / pyBigWig
  A python extension for quick access to bigWig and bigBed files
  ☆227Updated 2 months ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆182Updated 4 years ago
• broadinstitute / depmap_omics
  What you need to process the Quarterly DepMap-Omics releases from Terra
  ☆115Updated this week
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆71Updated last month
• urmi-21 / pyrpipe
  Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
  ☆82Updated 3 years ago
• GET-Foundation / get_model
  A modular framework for multimodal cross-cell-type transcriptional regulation models
  ☆67Updated 2 weeks ago
• sidhomj / DeepTCR
  Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data
  ☆118Updated 2 years ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆118Updated 2 years ago
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆299Updated 3 weeks ago
• KrishnaswamyLab / SingleCellWorkshop
  ☆90Updated 4 years ago
• kaizhang / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆254Updated last month
• crazyhottommy / TCR-BCR-seq-analysis
  T/B cell receptor sequencing analysis notes
  ☆245Updated 4 months ago
• mdozmorov / HiC_data
  A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.
  ☆188Updated 2 months ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆197Updated 6 months ago
• calico / scBasset
  Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.
  ☆97Updated 2 months ago
• Boyle-Lab / Blacklist
  Application for making ENCODE Blacklists
  ☆296Updated 3 years ago
• scverse / muon
  muon is a multimodal omics Python framework
  ☆231Updated last month
• BIMSBbioinfo / flexynesis
  A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible manner
  ☆51Updated last week