pinellolab / STREAM

Related projects ⓘ

Alternatives and complementary repositories for STREAM

• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆159Updated 4 months ago
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆75Updated last year
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆131Updated last year
• timoast / sinto
  Tools for single-cell data processing
  ☆118Updated 5 months ago
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆135Updated 7 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆150Updated last year
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆148Updated 4 months ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆154Updated 9 months ago
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆132Updated 5 months ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆87Updated 3 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆66Updated last year
• cellgeni / batchbench
  ☆47Updated 2 years ago
• GreenleafLab / MPAL-Single-Cell-2019
  Publication Page for MPAL Paper 2019
  ☆77Updated 4 years ago
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆65Updated 4 years ago
• iaconogi / bigSCale2
  Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data
  ☆101Updated last year
• GreenleafLab / 10x-scATAC-2019
  Publication Page for Satpathy*, Granja* et al 2019
  ☆92Updated 4 years ago
• scverse / scanpy_usage
  Scanpy use cases.
  ☆77Updated 4 years ago
• immunogenomics / presto
  Fast Wilcoxon and auROC
  ☆167Updated 2 weeks ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆133Updated 9 months ago
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆96Updated 3 weeks ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆89Updated 4 years ago
• ShobiStassen / VIA
  trajectory inference
  ☆86Updated last month
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆100Updated last year
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆123Updated this week
• csoneson / conquer_comparison
  Code for evaluation of differential expression methods in single-cell RNA-seq data
  ☆111Updated 4 years ago
• zhangzlab / covid_balf
  R script for the covid balf data analysis
  ☆64Updated 4 years ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆88Updated 2 years ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆179Updated 3 weeks ago
• theislab / anndata2ri
  Convert between AnnData and SingleCellExperiment
  ☆129Updated this week