Alternatives and similar repositories for spatial_scog_workshop_2022:

Users that are interested in spatial_scog_workshop_2022 are comparing it to the libraries listed below

• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆59Updated 7 months ago
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆42Updated 6 months ago
• Teichlab / bin2cell
  Join subcellular Visium HD bins into cells
  ☆70Updated last month
• aerickso / SpatialInferCNV
  Clone Calling from Visium Spatial Transcriptomics of Cancer samples
  ☆60Updated 2 years ago
• jfnavarro / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆70Updated this week
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆95Updated this week
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆101Updated 3 weeks ago
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆83Updated 6 months ago
• YosefLab / popV
  ☆65Updated this week
• matanhofree / crc-immune-hubs
  Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…
  ☆39Updated 3 years ago
• SpatialTranscriptomicsResearch / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆82Updated 3 years ago
• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆82Updated 5 months ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆39Updated 3 years ago
• zhengli09 / BASS
  Bayesian Analytics for Spatial Segmentation
  ☆22Updated 3 months ago
• Japrin / STARTRAC
  STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)
  ☆92Updated last year
• quadbio / scMultiome_analysis_vignette
  Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis
  ☆50Updated 8 months ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆61Updated last year
• zhengrongbin / MEBOCOST
  A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data
  ☆71Updated 2 months ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆100Updated 11 months ago
• shuxiaoc / maxfuse
  ☆46Updated 7 months ago
• icbi-lab / luca
  Single-cell Lung Cancer Atlas with 1.2M cells
  ☆58Updated last month
• favilaco / deconv_benchmark
  ☆58Updated 4 years ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆97Updated last year
• Nanostring-Biostats / SpatialDecon
  The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This al…
  ☆35Updated last month
• LungCellAtlas / HLCA_reproducibility
  This repository contains all code used for the Human Lung Cell Atlas project.
  ☆44Updated last year
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆48Updated 3 months ago
• navinlabcode / CellTrek
  ☆113Updated 2 years ago
• almaan / stereoscope
  Spatial mapping of cell types by integration of transcriptomics data
  ☆89Updated 2 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆67Updated last year
• Nanostring-Biostats / CellProfileLibrary
  ☆30Updated last month