Alternatives and similar repositories for scPhere

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

• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆73Updated 2 years ago
• KrishnaswamyLab / MELD
  Quantifying experimental perturbations at single cell resolution
  ☆112Updated last year
• calico / scnym
  Semi-supervised adversarial neural networks for classification of single cell transcriptomics data
  ☆77Updated last week
• AltschulerWu-Lab / scScope
  ☆48Updated 6 years ago
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆117Updated 2 years ago
• theislab / sfaira
  data and model repository for single-cell data
  ☆136Updated 2 years ago
• gifford-lab / prescient
  Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.
  ☆52Updated last year
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆71Updated 3 years ago
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆116Updated last year
• KrishnaswamyLab / scprep
  A collection of scripts and tools for loading, processing, and handling single cell data.
  ☆76Updated 4 months ago
• rajewsky-lab / novosparc
  ☆131Updated 2 years ago
• Teichlab / bbknn
  Batch balanced KNN
  ☆177Updated 2 years ago
• Vivianstats / scImpute
  Accurate and robust imputation of scRNA-seq data
  ☆98Updated 6 years ago
• zcang / SpaOTsc
  ☆47Updated 6 months ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆149Updated 3 years ago
• mohuangx / SAVER
  Single-cell RNA-seq Gene Expression Recovery
  ☆114Updated last year
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆46Updated 2 years ago
• shmohammadi86 / ACTIONet
  ACTIONet single-cell analysis framework
  ☆44Updated last year
• bowang-lab / DeepVelo
  ☆47Updated last year
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆95Updated last year
• KevinMenden / scaden
  Deep Learning based cell composition analysis with Scaden.
  ☆88Updated last year
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆48Updated 4 years ago
• KrishnaswamyLab / SingleCellWorkshop
  ☆96Updated 5 years ago
• broadinstitute / wot
  A software package for analyzing snapshots of developmental processes
  ☆153Updated 3 years ago
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆126Updated 2 months ago
• raphael-group / paste
  Probabilistic Alignment of Spatial Transcriptomics Experiments
  ☆99Updated 11 months ago
• romain-lopez / scVI-reproducibility
  Reproducing the experiments of the paper "Deep generative modeling for single-cell transcriptomics"
  ☆57Updated 7 years ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆81Updated 11 months ago
• jsxlei / SCALEX
  Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space
  ☆81Updated 3 weeks ago
• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆103Updated 2 years ago