Probabilistic topic model for identifying cellular micro-environments.
☆29Jul 6, 2023Updated 2 years ago
Alternatives and similar repositories for spatial_lda
Users that are interested in spatial_lda are comparing it to the libraries listed below
Sorting:
- Scripts for interacting with and generating data from the commercial MIBIScope☆16Jan 22, 2026Updated 2 months ago
- Integrated pipeline for multiplexed image analysis☆103Jan 7, 2026Updated 2 months ago
- ☆27Oct 23, 2025Updated 4 months ago
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆39May 7, 2024Updated last year
- ☆30Oct 4, 2024Updated last year
- Clonalscope is a subclone detection method based on copy number alterations (CNAs) for single-cell and ST tumor sequencing data. Clonalsc…☆27Sep 30, 2025Updated 5 months ago
- Translation of DeepJDOT into pytorch.☆10May 31, 2021Updated 4 years ago
- ☆28Jun 24, 2025Updated 8 months ago
- ☆15Aug 22, 2016Updated 9 years ago
- Examples and code for optical pooled screens☆10Dec 8, 2022Updated 3 years ago
- Computer simulator of multiplex tissue images from a set of user-defined parameters☆10Dec 13, 2022Updated 3 years ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆56Jun 25, 2025Updated 8 months ago
- tGPLVM: A Nonparametric, Generative Model for Manifold Learning with scRNA-seq experimental data☆17Jun 4, 2019Updated 6 years ago
- ☆13Jan 16, 2019Updated 7 years ago
- ☆22Oct 11, 2022Updated 3 years ago
- A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method☆43Feb 9, 2021Updated 5 years ago
- Histopathology whole slide image library☆16Mar 10, 2026Updated last week
- A flexible parser generator producing output from object-oriented hierarchical context-free grammar specifications.☆12Nov 16, 2021Updated 4 years ago
- Deeply supervised density regression for automatic cell counting in microscopy images☆12Jan 31, 2022Updated 4 years ago
- Pixie pipeline described in Liu et al., Robust phenotyping of highly multiplexed tissue imaging data using pixel-level clustering☆12Aug 3, 2023Updated 2 years ago
- nnSVG: scalable method to identify spatially variable genes (SVGs) in spatially-resolved transcriptomics data☆23May 19, 2025Updated 10 months ago
- Gaussian processes in TensorFlow via R☆16Sep 10, 2017Updated 8 years ago
- convert your archive that you download from twitter into a maildir you can load in a mail client☆12Jan 28, 2022Updated 4 years ago
- Piecewise alignment for layers of mosaics☆41Feb 18, 2026Updated last month
- R package to read ImageJ ROI files☆12Aug 17, 2024Updated last year
- Framework for image and flow cytometry analysis☆33Jan 3, 2026Updated 2 months ago
- Enhanced Transport Distance for Unsupervised Domain Adaptation☆12Mar 20, 2020Updated 6 years ago
- Python Image Registration Toolkit☆25Feb 7, 2025Updated last year
- elliptical fourier descriptors with and without lobe contributions☆13Sep 15, 2020Updated 5 years ago
- Bayesian Clustering and Imputation of Single Cell Methylomes☆15Jul 16, 2020Updated 5 years ago
- Work with trained factor models in Python☆39Oct 22, 2024Updated last year
- A package for the analysis of Imaging Mass Cytometry data☆15Mar 5, 2026Updated 2 weeks ago
- Implementation of efficient Graph-based Image segmentation paper☆10May 19, 2020Updated 5 years ago
- ☆11Jan 13, 2020Updated 6 years ago
- Official repository for Characterization of tumor heterogeneity through segmentation-free representation learning on multiplexed imaging …☆15Sep 28, 2025Updated 5 months ago
- Removing PCR duplicates for sequencing reads.☆14Sep 8, 2020Updated 5 years ago
- ☆19Mar 11, 2024Updated 2 years ago
- A toolkit for processing multiplexed tissue images☆67Updated this week
- OpenSeadragon filtering plugin☆46Mar 5, 2024Updated 2 years ago