BodenmillerGroup / imctoolsLinks
Tools to handle IMC data
☆24Updated 3 years ago
Alternatives and similar repositories for imctools
Users that are interested in imctools are comparing it to the libraries listed below
Sorting:
- Image Mass Cytometry analysis pipeline☆26Updated 8 months ago
- An R package for performing cell typing in SMI and other single cell data☆48Updated 8 months ago
- Tools for analyzing Slide-seq data☆31Updated 2 years ago
- ☆24Updated 2 weeks ago
- Identification of spatial homogeneous regions☆21Updated 4 months ago
- Python package for Probe set selection for targeted spatial transcriptomics.☆48Updated 3 months ago
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆66Updated 7 months ago
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆65Updated last week
- An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.☆30Updated this week
- Port of symphony algorithm of single-cell reference atlas mapping to Python☆34Updated 2 months ago
- .h5mu files interface for Seurat☆32Updated 2 years ago
- Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper☆27Updated 3 years ago
- ☆53Updated 2 years ago
- ☆13Updated 7 years ago
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆52Updated 3 years ago
- Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.☆38Updated 3 weeks ago
- Spatial One☆30Updated last year
- A toolset for analysis and visualisation of Spatial Transcriptomics datasets.☆18Updated 4 years ago
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆30Updated last year
- An R package for handling and analysing imaging mass cytometry data☆30Updated last month
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆17Updated 4 years ago
- Single-cell copy number calling and event history reconstruction.☆28Updated last year
- The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This al…☆41Updated this week
- Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics☆46Updated 5 months ago
- Mitochondrial Alteration Enrichment and Genome Analysis Toolkit☆24Updated 2 years ago
- Spatially constrained color profiling for visualizing single-cell resolution spatial data☆25Updated last year
- Pipeline for designing custom probes against human genes☆20Updated last week
- Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.☆17Updated 4 months ago
- Python package to perform normalization and variance-stabilization of single-cell data☆25Updated 6 months ago
- R package for visualization of highly multiplexed imaging data☆34Updated 8 months ago