Alternatives and similar repositories for formulaic-contrasts

Users that are interested in formulaic-contrasts are comparing it to the libraries listed below

• bioFAM / mofaflex
  factor models for omics data
  ☆32Updated last week
• quadbio / cell-annotator
  Automatically annotate cell types, consistently across samples.
  ☆18Updated last week
• scverse / genomic-features
  Genomic Features in Python from BioConductor's AnnotationHub
  ☆22Updated 2 weeks ago
• scverse / shadows
  Shadow objects for AnnData and MuData (experimental)
  ☆11Updated 11 months ago
• scverse / conference-2024
  Slides and Notebooks for scverse 2024
  ☆17Updated last year
• laminlabs / bionty-base
  Access public biological ontologies.
  ☆15Updated last year
• saeyslab / FlowSOM_Python
  The complete FlowSOM package known from R, now available in Python!
  ☆27Updated last week
• scverse / ecosystem-packages
  Registry for scverse ecosystem packages
  ☆34Updated last week
• theislab / geome
  ☆15Updated 2 months ago
• MICS-Lab / scyan
  Biology-driven deep generative model for cell-type annotation in cytometry. Scyan is an interpretable model that also corrects batch-effe…
  ☆42Updated last year
• theislab / batchglm
  Fit generalized linear models in python.
  ☆28Updated 2 years ago
• laminlabs / bionty
  Registries for biological ontologies.
  ☆23Updated last week
• sagar87 / spatialproteomics
  Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…
  ☆39Updated last week
• dawe / schist
  An interface for Nested Stochastic Block Model for single cell analysis
  ☆36Updated 4 months ago
• regulatory-genomics / anndata-rs
  ☆40Updated last week
• jkobject / scDataLoader
  a dataloader to work with large single cell datasets from lamindb
  ☆34Updated this week
• metaspace2020 / metaspace-converter
  Download and Convert METASPACE datasets to common formats such as AnnData or SpatialData
  ☆15Updated last year
• buettnerlab / convexgating
  Optimal gating strategies for flow and mass cytometry.
  ☆16Updated 3 months ago
• dissatisfaction-ai / scHierarchy
  A toolking for cell type hierarchies: marker selection & consistent classification
  ☆22Updated 2 years ago
• mvinyard / torch-adata
  Create PyTorch Datasets from AnnData
  ☆21Updated last month
• nf-core / molkart
  A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)
  ☆13Updated 2 months ago
• theislab / interactive_plotting
  ☆22Updated last month
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆65Updated this week
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆30Updated last year
• single-cell-data / SOMA
  A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.
  ☆82Updated 2 weeks ago
• const-ae / pyLemur
  A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.
  ☆28Updated last year
• theislab / troutpy
  Package for the analysis of Transcripts outside segmented cells in ST data
  ☆25Updated last week
• almaan / eggplant
  ☆22Updated 3 years ago
• HiDiHlabs / SpatialLeiden
  Implementation of multiplex Leiden for analysis of spatial omics data
  ☆17Updated last week
• broadinstitute / celldega
  Spatial omics analysis and visualization library
  ☆22Updated last week