Alternatives and similar repositories for diffcyt

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

• BIRSBiointegration / Hackathon
  Multi-omics studies are available here
  ☆52Updated 3 years ago
• maggiecrow / DEprior
  ☆15Updated 4 years ago
• MSingerLab / COMETSC
  COMET Single-Cell Marker Detection tool
  ☆31Updated 3 years ago
• jessemzhang / tn_test
  post-clustering differential expression test
  ☆35Updated 6 years ago
• korsunskylab / rcna
  R implementation of the Reshef and Rumker CNA method (https://github.com/immunogenomics/cna)
  ☆15Updated last year
• genesofeve / projectR
  ☆62Updated 4 months ago
• waldronlab / data-science-seminar
  Topics In Data Science and Bioinformatics
  ☆78Updated last year
• forrest-lab / scMatch
  scMatch: a single-cell gene expression profile annotation tool using reference datasets
  ☆21Updated 4 years ago
• SydneyBioX / scMerge
  Statistical approach for removing unwanted variation from multiple single-cell datasets
  ☆67Updated last year
• kieranrcampbell / switchde
  Inference of switch-like differential expression along single-cell trajectories
  ☆20Updated 7 years ago
• bioturing / signac
  An analytics package for single cell data
  ☆22Updated 3 years ago
• yanwu2014 / swne
  Similarity Weighted Nonnegative Embedding (SWNE), a method for visualizing high dimensional datasets
  ☆105Updated 2 years ago
• randel / MIND
  Using Bulk Gene Expression to Estimate Cell-Type-Specific Gene Expression via Deconvolution
  ☆45Updated 2 years ago
• mm-shah / MetaNeighbor
  A method to rapidly assess cell type identity using both functional and random gene sets
  ☆13Updated 6 years ago
• immunogenomics / singlecellmethods
  Collection of useful methods for single cell analysis
  ☆14Updated 11 months ago
• markrobinsonuzh / cytofWorkflow
  ☆16Updated last year
• zdebruine / singlet
  Single-cell analysis with non-negative matrix factorization
  ☆45Updated 2 weeks ago
• tidyomics / tidySingleCellExperiment
  Brings SingleCellExperiment objects to the tidyverse
  ☆36Updated 3 weeks ago
• mojaveazure / loomR
  An R-based interface for loom files
  ☆66Updated 5 years ago
• ncchung / jackstraw
  Statistical Inference for Unsupervised Learning
  ☆16Updated 7 months ago
• epurdom / clusterExperiment
  R package of techniques for comparing clusterings of single-cell sequencing data
  ☆39Updated last year
• pachterlab / SpatialFeatureExperiment
  Extension of SpatialExperiment with sf
  ☆55Updated last month
• milescsmith / ReductionWrappers
  R wrappers to connect Python dimensional reduction tools and single cell data objects (Seurat, SingleCellExperiment, etc...)
  ☆36Updated 7 months ago
• drighelli / SpatialExperiment
  ☆66Updated 2 months ago
• igrabski / scRNAseq-cell-type
  Probabilistic gene expression barcodes for cell type annotation
  ☆25Updated 3 years ago
• pachterlab / concordexR
  Compute the neighborhood consolidation matrix and identify SHRs
  ☆13Updated last month
• RGLab / FAUST
  Full annotation using shape-constrained trees
  ☆25Updated last year
• RGLab / CytoML
  A GatingML Interface for Cross Platform Cytometry Data Sharing
  ☆31Updated 5 months ago
• LTLA / scRNAseq
  Clone of the Bioconductor repository for the scRNAseq package.
  ☆29Updated 6 months ago
• kevinrue / velociraptor
  Toolkit for Single-Cell Velocity
  ☆58Updated last month