Alternatives and similar repositories for slideseq-tools

Users that are interested in slideseq-tools are comparing it to the libraries listed below

• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆21Updated last year
• Teichlab / gene2probe
  Pipeline for designing custom probes against human genes
  ☆17Updated 10 months ago
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆39Updated 3 months ago
• dpeerlab / Harmony
  Harmony framework for connecting scRNA-seq data from discrete time points
  ☆50Updated last year
• atarashansky / self-assembling-manifold
  The Self-Assembling-Manifold (SAM) algorithm.
  ☆45Updated last year
• jbergenstrahle / STUtility
  ☆53Updated 2 years ago
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆42Updated 2 years ago
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆37Updated last month
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆32Updated last year
• raphael-group / paste3
  ☆14Updated 8 months ago
• Teichlab / snp2cell
  cell type specific, trait-associated gene regulation
  ☆27Updated 5 months ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆29Updated this week
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆55Updated 3 months ago
• Teichlab / visium_stitcher
  Stitch multiple Visium slides together
  ☆16Updated last year
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆57Updated 4 years ago
• gerstung-lab / BaSISS
  Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper
  ☆26Updated 2 years ago
• jfnavarro / st_analysis
  A toolset for analysis and visualisation of Spatial Transcriptomics datasets.
  ☆18Updated 4 years ago
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆26Updated last year
• lcmmichielsen / scHPL
  ☆35Updated 6 months ago
• JCVenterInstitute / NSForest
  A machine learning method for the discovery of the minimum marker gene combinations for cell type identification from single-cell RNA seq…
  ☆65Updated 2 weeks ago
• KChen-lab / MEDALT
  Inference of Minimal Event Distance Aneuploidy Lineage Tree based on single cell copy number profile
  ☆21Updated 2 years ago
• WangPeng-Lab / scGCO
  Single-cell Graph Cuts Optimization
  ☆16Updated last year
• aertslab / ScoMAP
  ScoMAP is an R package to spatially integrate single-cell omics data into virtual cells and infer enhancer-to-gene relationships.
  ☆27Updated 3 years ago
• raphael-group / CalicoST
  Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics
  ☆41Updated 3 weeks ago
• lanagarmire / SSrGE
  ☆34Updated 6 years ago
• kharchenkolab / cacoa
  Single-cell Case Control Analysis
  ☆52Updated 2 weeks ago
• rajewsky-lab / spacemake
  ☆44Updated last month
• UPSUTER / GEMLI
  ☆32Updated 7 months ago
• bioinfoDZ / RISC
  A R package for integrated scRNA-seq data analysis using the RPCI algorithm
  ☆44Updated last year
• ambrosejcarr / seqc
  Single-Cell Sequencing Quality Control and Processing Software
  ☆30Updated 5 years ago