Alternatives and similar repositories for simba

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

• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆66Updated 4 months ago
• jsxlei / SCALEX
  Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space
  ☆79Updated 2 months ago
• nitzanlab / biolord
  ☆86Updated last year
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆44Updated 2 years ago
• lanagarmire / Asgard
  ☆44Updated last year
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆107Updated last month
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆50Updated 6 months ago
• calico / scBasset
  Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.
  ☆98Updated 2 months ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆68Updated 2 years ago
• theislab / scTab
  ☆61Updated last year
• Durenlab / LINGER
  ☆118Updated 5 months ago
• shmohammadi86 / ACTIONet
  ACTIONet single-cell analysis framework
  ☆43Updated last year
• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆103Updated 2 years ago
• mossjacob / pyslingshot
  Python implementation of the Slingshot pseudotime algorithm
  ☆66Updated 2 weeks ago
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆71Updated 2 years ago
• Roy-lab / scMTNI
  ☆30Updated 3 months ago
• ZJUFanLab / scDeepSort
  Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network
  ☆106Updated 2 years ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆143Updated 2 years ago
• TencentAILabHealthcare / scTranslator
  ☆44Updated 2 months ago
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆70Updated last year
• huidongchen / simba
  SIMBA: SIngle-cell eMBedding Along with features
  ☆19Updated last year
• theislab / DRVI
  Unsupervised Deep Disentangled Representation of Single-Cell Omics
  ☆56Updated last week
• Su-informatics-lab / DSTG
  Deconvoluting Spatial Transcriptomics Data through Graph-based Artificial Intelligence
  ☆39Updated 3 years ago
• Lotfollahi-lab / nichecompass
  End-to-end analysis of spatial multi-omics data
  ☆95Updated last week
• zcang / SpaOTsc
  ☆45Updated 3 months ago
• HantaoShu / DeepSEM
  ☆85Updated 2 years ago
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer link prediction
  ☆43Updated last month
• OSU-BMBL / deepmaps
  Single-cell biological network inference using a heterogeneous graph transformer
  ☆76Updated 8 months ago
• bowang-lab / DeepVelo
  ☆46Updated last year
• altoslabs / perturbench
  ☆56Updated last month