Alternatives and similar repositories for batch-effects-normalization

Users that are interested in batch-effects-normalization are comparing it to the libraries listed below

• recursionpharma / maes_microscopy
  Official repo for Recursion's accepted spotlight paper at NeurIPS 2023 Generative AI & Biology workshop.
  ☆62Updated last month
• broadinstitute / cellpainting-gallery
  Cell Painting Gallery
  ☆93Updated last week
• bunnelab / virtues
  A foundation model framework for analyzing multiplexed tissue imaging data across molecular, cellular and tissue scales enabling clinical…
  ☆32Updated 4 months ago
• jump-cellpainting / datasets
  Images and other data from the JUMP Cell Painting Consortium
  ☆174Updated last week
• jump-cellpainting / 2024_Chandrasekaran_NatureMethods
  ☆63Updated 4 months ago
• Boom5426 / Awesome-Phenotypic-Drug-Discovery
  PDD: Awesome Phenotypic Drug Discovery
  ☆29Updated this week
• OmicsML / CellPLM
  Official repo for CellPLM: Pre-training of Cell Language Model Beyond Single Cells.
  ☆87Updated last year
• Genentech / PerturbQA
  ☆13Updated 4 months ago
• SichenZhu / Stem
  [ICLR 2025] Stem: Gene Expression Inference from Histology Images
  ☆32Updated 2 months ago
• mahmoodlab / HEST
  Integrating histology and spatial transcriptomics - NeurIPS 2024
  ☆289Updated 2 months ago
• theislab / IMPA
  ☆13Updated 6 months ago
• snap-stanford / UCE
  UCE is a zero-shot foundation model for single-cell gene expression data
  ☆207Updated 4 months ago
• idekerlab / TCRP
  Few shot learning for cancer
  ☆36Updated 3 years ago
• EperLuo / scDiffusion
  A model developed for the generation of scRNA-seq data
  ☆67Updated 4 months ago
• theislab / nicheformer
  Repository for Nicheformer: a foundation model for single-cell and spatial omics
  ☆94Updated 3 months ago
• theislab / chemCPA
  Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
  ☆117Updated 5 months ago
• bunnech / condot
  Supervised Training of Conditional Monge Maps
  ☆18Updated last year
• jimmylihui / GenBench
  ☆22Updated last month
• recursionpharma / EFAAR_benchmarking
  External repo for the EFAAR benchmarking paper
  ☆20Updated 3 weeks ago
• GSK-AI / mocop
  Code and models for Molecule-Morphology Contrastive Pretraining (MoCoP)
  ☆12Updated last year
• microsoft / zero-shot-scfoundation
  ☆72Updated 10 months ago
• jump-cellpainting / JUMP-Target
  Lists and 384-well plate maps of compounds and genetic perturbations designed to assess connectivity in profiling assays
  ☆21Updated 6 months ago
• bunnech / cellot
  Learning Single-Cell Perturbation Responses using Neural Optimal Transport
  ☆140Updated 8 months ago
• yeung-lab / Micro-Bench
  A Vision-Language Benchmark for Microscopy Understanding
  ☆26Updated 4 months ago
• jmhb0 / o2vae
  [Nature Communications] O2VAE: a model for orientation-invariant representation learning (phenotyping) in cell biology data
  ☆33Updated 3 months ago
• jkobject / geneformer
  ☆70Updated last month
• uhlerlab / cross-modal-autoencoders
  ☆55Updated 2 years ago
• mims-harvard / PINNACLE
  Contextual AI models for single-cell protein biology
  ☆86Updated 4 months ago
• JiawenChenn / STimage-1K4M
  ☆70Updated 2 months ago
• crosszamirski / WS-DINO
  WS-DINO: a novel framework to use weak label information in a self-supervised setting to learn phenotypic representations from high-conte…
  ☆21Updated 2 years ago