Alternatives and similar repositories for molkart

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

• nf-core / mcmicro
  An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.
  ☆27Updated 2 weeks ago
• scverse / genomic-features
  Genomic Features in Python from BioConductor's AnnotationHub
  ☆22Updated last week
• pachterlab / concordex
  Identification of spatial homogeneous regions
  ☆21Updated 2 months ago
• nf-core / imcyto
  Image Mass Cytometry analysis pipeline
  ☆26Updated 6 months ago
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆65Updated 5 months ago
• scverse / ecosystem-packages
  Registry for scverse ecosystem packages
  ☆31Updated last week
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆43Updated 6 months ago
• nf-core / spatialxe
  ☆24Updated 2 weeks ago
• sagar87 / spatialproteomics
  Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…
  ☆40Updated last month
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆30Updated last year
• BodenmillerGroup / imctools
  Tools to handle IMC data
  ☆23Updated 3 years ago
• broadinstitute / celldega
  Spatial omics analysis and visualization library
  ☆21Updated this week
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆33Updated 2 months ago
• SydneyBioX / MoleculeExperiment
  ☆12Updated last year
• rajewsky-lab / spacemake
  ☆48Updated this week
• estellad / SpatialExperimentIO
  Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.
  ☆16Updated 2 months ago
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆32Updated 2 years ago
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆62Updated 3 months ago
• vitessce / vitessceR
  R API and htmlwidget for Vitessce
  ☆44Updated 3 months ago
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆33Updated last year
• nf-core / spatialvi
  Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcri…
  ☆68Updated 2 weeks ago
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆33Updated last week
• const-ae / pyLemur
  A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.
  ☆27Updated 11 months ago
• Feanor007 / MESA
  A python package for Multiomics and Ecological Spatial Analysis (MESA)
  ☆22Updated 8 months ago
• dynverse / anndata
  Annotated multivariate observation data in R
  ☆51Updated 6 months ago
• hubmapconsortium / spatial-transcriptomics-pipeline
  ☆29Updated last year
• quadbio / cell-annotator
  Automatically annotate cell types, consistently across samples.
  ☆17Updated last week
• gerstung-lab / BaSISS
  Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper
  ☆27Updated 3 years ago
• Teichlab / sctk
  ☆43Updated last month
• theislab / multimil
  Multimodal weakly supervised learning to identify disease-specific changes in single-cell atlases
  ☆35Updated 2 months ago