Alternatives and similar repositories for scPhere:

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

• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆109Updated 4 months ago
• rajewsky-lab / novosparc
  ☆127Updated last year
• AltschulerWu-Lab / scScope
  ☆49Updated 5 years ago
• gifford-lab / prescient
  Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.
  ☆46Updated 2 months ago
• zcang / SpaOTsc
  ☆45Updated 2 years ago
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆67Updated 2 years ago
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆80Updated 4 months ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆59Updated 2 years ago
• mohuangx / SAVER
  Single-cell RNA-seq Gene Expression Recovery
  ☆110Updated 3 months ago
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆109Updated last year
• KrishnaswamyLab / SingleCellWorkshop
  ☆90Updated 4 years ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆63Updated last month
• Teichlab / bbknn
  Batch balanced KNN
  ☆154Updated last year
• KrishnaswamyLab / MELD
  Quantifying experimental perturbations at single cell resolution
  ☆106Updated 5 months ago
• hmatsu1226 / SCODE
  SCODE : an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation
  ☆43Updated 5 years ago
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆40Updated last year
• YosefLab / SymSim
  ☆24Updated 5 months ago
• LuyiTian / sc_mixology
  This contains the dataset for comparing scRNA-seq analysis methods
  ☆91Updated 4 years ago
• Vivianstats / scImpute
  Accurate and robust imputation of scRNA-seq data
  ☆95Updated 5 years ago
• KrishnaswamyLab / scprep
  A collection of scripts and tools for loading, processing, and handling single cell data.
  ☆72Updated last year
• theislab / sc-pert
  Models and datasets for perturbational single-cell omics
  ☆150Updated 2 years ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆54Updated last week
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆155Updated 8 months ago
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆61Updated 3 years ago
• cantinilab / momix-notebook
  ☆65Updated last year
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆137Updated 11 months ago
• romain-lopez / scVI-reproducibility
  Reproducing the experiments of the paper "Deep generative modeling for single-cell transcriptomics"
  ☆56Updated 6 years ago
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆83Updated 6 months ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated 10 months ago
• simslab / scHPF
  Single-cell Hierarchical Poisson Factorization
  ☆68Updated 2 years ago