theislab / anndata2ri

Related projects ⓘ

Alternatives and complementary repositories for anndata2ri

• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆93Updated last year
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆84Updated 4 months ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆123Updated this week
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆100Updated 2 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆150Updated last year
• martinjzhang / scDRS
  Single-cell disease relevance score (scDRS)
  ☆113Updated last month
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆86Updated last week
• icbi-lab / infercnvpy
  Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
  ☆137Updated this week
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆75Updated last year
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆66Updated last year
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆151Updated last week
• cellgeni / batchbench
  ☆47Updated 2 years ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆75Updated 5 months ago
• timoast / sinto
  Tools for single-cell data processing
  ☆118Updated 5 months ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆170Updated 2 months ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆60Updated last year
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆96Updated 2 months ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆147Updated 4 months ago
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆96Updated 2 weeks ago
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆65Updated 4 years ago
• rajewsky-lab / novosparc
  ☆126Updated last year
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆58Updated last week
• navinlabcode / CellTrek
  ☆108Updated 2 years ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆100Updated last year
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆87Updated 3 years ago
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆92Updated 5 months ago
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆141Updated last week
• ShobiStassen / VIA
  trajectory inference
  ☆86Updated last month
• interactivereport / cellxgene_VIP
  Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…
  ☆134Updated 5 months ago
• GregorySchwartz / too-many-cells
  Cluster single cells and analyze cell clade relationships with colorful visualizations.
  ☆105Updated 3 weeks ago