scverse / scanpy

Related projects: ⓘ

• scverse / scvi-tools
  Deep probabilistic analysis of single-cell and spatial omics data
  ☆1,204Updated this week
• theislab / single-cell-tutorial
  Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq an…
  ☆1,354Updated last year
• scverse / anndata
  Annotated data.
  ☆564Updated this week
• satijalab / seurat
  R toolkit for single cell genomics
  ☆2,249Updated last week
• seandavi / awesome-single-cell
  Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
  ☆3,121Updated 2 weeks ago
• chanzuckerberg / cellxgene
  An interactive explorer for single-cell transcriptomics data
  ☆616Updated last week
• hemberg-lab / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆670Updated 2 years ago
• theislab / single-cell-best-practices
  https://www.sc-best-practices.org
  ☆736Updated last month
• mdozmorov / scRNA-seq_notes
  A list of scRNA-seq analysis tools
  ☆614Updated 3 months ago
• hbctraining / scRNA-seq
  ☆527Updated 3 years ago
• mikelove / awesome-multi-omics
  List of software packages for multi-omics analysis
  ☆708Updated 4 months ago
• ncbi / sra-tools
  SRA Tools
  ☆1,101Updated this week
• crazyhottommy / RNA-seq-analysis
  RNAseq analysis notes from Ming Tang
  ☆884Updated 2 years ago
• aertslab / pySCENIC
  pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…
  ☆418Updated 5 months ago
• zqfang / GSEApy
  Gene Set Enrichment Analysis in Python
  ☆544Updated last week
• griffithlab / rnaseq_tutorial
  Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis inclu…
  ☆1,327Updated last year
• crazyhottommy / ChIP-seq-analysis
  ChIP-seq analysis notes from Ming Tang
  ☆736Updated last month
• theislab / scvelo
  RNA Velocity generalized through dynamical modeling
  ☆410Updated 2 weeks ago
• immunogenomics / harmony
  Fast, sensitive and accurate integration of single-cell data with Harmony
  ☆515Updated 7 months ago
• YuLab-SMU / clusterProfiler
  A universal enrichment tool for interpreting omics data
  ☆1,004Updated 3 weeks ago
• hbctraining / scRNA-seq_online
  ☆496Updated 3 weeks ago
• sqjin / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
  ☆622Updated 8 months ago
• MultiQC / MultiQC
  Aggregate results from bioinformatics analyses across many samples into a single report.
  ☆1,202Updated this week
• crazyhottommy / scRNAseq-analysis-notes
  scRNAseq analysis notes from Ming Tang
  ☆629Updated 5 months ago
• OpenGene / fastp
  An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
  ☆1,868Updated 2 months ago
• crazyhottommy / getting-started-with-genomics-tools-and-resources
  Unix, R and python tools for genomics and data science
  ☆1,150Updated last month
• broadinstitute / infercnv
  Inferring CNV from Single-Cell RNA-Seq
  ☆554Updated last month
• macs3-project / MACS
  MACS -- Model-based Analysis of ChIP-Seq
  ☆698Updated last week
• bcbio / bcbio-nextgen
  Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
  ☆985Updated 3 weeks ago
• aristoteleo / dynamo-release
  Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …
  ☆413Updated last week