Alternatives and similar repositories for simba

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

• theislab / scTab
  ☆59Updated last year
• Durenlab / LINGER
  ☆114Updated 3 months ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆64Updated 2 months ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆67Updated 2 years ago
• mossjacob / pyslingshot
  Python implementation of the Slingshot pseudotime algorithm
  ☆64Updated last year
• const-ae / linear_perturbation_prediction-Paper
  ☆49Updated last month
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆43Updated 2 years ago
• hui2000ji / scETM
  A generative topic model that facilitates integrative analysis of large-scale single-cell RNA sequencing data.
  ☆53Updated 3 years ago
• Lotfollahi-lab / nichecompass
  End-to-end analysis of spatial multi-omics data
  ☆93Updated last month
• TencentAILabHealthcare / scTranslator
  ☆36Updated 3 weeks ago
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆69Updated 2 years ago
• nitzanlab / biolord
  ☆82Updated last year
• jsxlei / SCALEX
  Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space
  ☆79Updated 3 months ago
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆102Updated 6 months ago
• lanagarmire / Asgard
  ☆43Updated last year
• madilabcode / scNET
  ☆53Updated this week
• ZJUFanLab / scDeepSort
  Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network
  ☆104Updated 2 years ago
• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆102Updated 2 years ago
• huidongchen / simba
  SIMBA: SIngle-cell eMBedding Along with features
  ☆19Updated last year
• cantinilab / scPRINT
  single cell foundation model
  ☆103Updated this week
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated 4 months ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆72Updated this week
• calico / scBasset
  Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.
  ☆98Updated this week
• bowang-lab / DeepVelo
  ☆46Updated last year
• theislab / sc-pert
  Models and datasets for perturbational single-cell omics
  ☆162Updated 3 years ago
• decomverse / ACTIONet
  ACTIONet single-cell analysis framework
  ☆42Updated 11 months ago
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆110Updated 10 months ago
• cliffren / PENCIL
  PENCIL is a novel tool for singlecell data analysis to identify phenotype associated subpopulations and informative genes simultaneously.
  ☆28Updated last year
• altoslabs / perturbench
  ☆37Updated 3 months ago
• QuKunLab / MultiomeBenchmarking
  ☆50Updated 6 months ago