Alternatives and similar repositories for TOSICA

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

• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆151Updated 8 months ago
• Durenlab / LINGER
  ☆118Updated 5 months ago
• ZJUFanLab / scDeepSort
  Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network
  ☆106Updated 2 years ago
• SuperBianC / scMulan
  Repository for paper scMulan: a multitask generative pre-trained language model for single-cell analysis.
  ☆59Updated last year
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆144Updated 2 years ago
• calico / scBasset
  Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.
  ☆98Updated 2 months ago
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆107Updated last month
• xCompass-AI / GeneCompass
  GeneCompass
  ☆98Updated last month
• labomics / midas
  PyTorch implementation of the MIDAS algorithm for single-cell multimodal data integration (Nature Biotechnology 2024).
  ☆59Updated 2 months ago
• ZhangLabGT / scMultiSim
  A simulator for single cell multi-omics and spatial omics data that provides ground truth to benchmark a wide range of methods.
  ☆63Updated last week
• theislab / sc-pert
  Models and datasets for perturbational single-cell omics
  ☆167Updated 3 years ago
• snap-stanford / SATURN
  ☆143Updated last year
• QuKunLab / SpatialBenchmarking
  ☆125Updated 3 years ago
• GET-Foundation / get_model
  A modular framework for multimodal cross-cell-type transcriptional regulation models
  ☆93Updated 3 months ago
• TencentAILabHealthcare / scTranslator
  ☆52Updated 2 months ago
• ZJUFanLab / bulk2space
  a spatial deconvolution method based on deep learning frameworks, which converts bulk transcriptomes into spatially resolved single-cell …
  ☆126Updated 2 years ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆68Updated 2 years ago
• Genentech / scimilarity
  A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…
  ☆223Updated 4 months ago
• YangLabHKUST / SpatialScope
  A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models
  ☆73Updated last year
• theislab / nicheformer
  Repository for Nicheformer: a foundation model for single-cell and spatial omics
  ☆115Updated 7 months ago
• clinicalml / sc-foundation-eval
  Code for evaluating single cell foundation models scBERT and scGPT
  ☆46Updated last year
• sallyqus / awesome-AI4SingleCell
  Must-read papers on deep learning based methodology paper for single cell data analysis
  ☆19Updated 4 years ago
• cantinilab / scPRINT
  🏃 The go-to single-cell Foundation Model
  ☆117Updated last week
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆77Updated this week
• biomed-AI / CellFM
  ☆85Updated 2 months ago
• OSU-BMBL / deepmaps
  Single-cell biological network inference using a heterogeneous graph transformer
  ☆76Updated 8 months ago
• xianglin226 / Benchmarking-Single-Cell-Perturbation
  Single-Cell (Perturbation) Model Library
  ☆81Updated 2 months ago
• azizilab / starfysh
  Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology
  ☆123Updated 5 months ago
• madilabcode / scNET
  ☆55Updated last month
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆70Updated last year