akoyabio / phenoptrView external linksLinks
Helper functions for working with inForm data.
☆20May 3, 2022Updated 3 years ago
Alternatives and similar repositories for phenoptr
Users that are interested in phenoptr are comparing it to the libraries listed below
Sorting:
- Create analysis reports from inForm data.☆15Nov 9, 2023Updated 2 years ago
- This repository includes codes and data example used in the "Integrative Spatial Analysis Reveals Tumor Heterogeneity and Immune Colon…☆16May 26, 2025Updated 8 months ago
- VorteX Clustering Environment - Java graphical tool for single-cell analysis, clustering and visualization. Latest release:☆34Apr 17, 2023Updated 2 years ago
- Histology Topography Cytometry Analysis Toolbox☆69Oct 28, 2025Updated 3 months ago
- Modular pipeline for integrated analysis of the tumour microenvironment using multiplex imaging☆14Jul 29, 2025Updated 6 months ago
- Robust and scalable inference of cell lineages via consensus clustering. Features novel algorithms for the comparison of weighted graphs …☆14Jan 16, 2017Updated 9 years ago
- R package for visualization of highly multiplexed imaging data☆34May 27, 2025Updated 8 months ago
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆52May 20, 2022Updated 3 years ago
- Splotch is a hierarchical generative probabilistic model for analyzing Spatial Transcriptomics (ST) data☆21May 19, 2025Updated 8 months ago
- Tools for analyzing data on the image from NanoString GeoMx Digital Spatial Profiler (DSP).☆24Sep 29, 2025Updated 4 months ago
- Dynamical systems methods for RNA velocity analysis☆24May 19, 2021Updated 4 years ago
- QuPath extension to interactively align images☆26Aug 7, 2025Updated 6 months ago
- Single cell interactive plotting tools☆24Jun 12, 2020Updated 5 years ago
- ☆20May 6, 2025Updated 9 months ago
- Code for Russell et al. "A large-scale analysis of bioinformatics code on GitHub"☆34Apr 29, 2019Updated 6 years ago
- Babel creates cliques of equivalent identifiers across many biomedical vocabularies.☆12Updated this week
- Code generated by Evelyn Fitzsimons (Regmefi)☆11Aug 30, 2024Updated last year
- A package for the analysis of Imaging Mass Cytometry data☆13Jan 21, 2026Updated 3 weeks ago
- ☆10Dec 17, 2019Updated 6 years ago
- Pipeline for computational pathology☆37Jan 4, 2024Updated 2 years ago
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆39Sep 23, 2025Updated 4 months ago
- Dimensionality reduction for single cell RNA-seq data☆36Feb 9, 2020Updated 6 years ago
- SRA python tools☆11Jun 9, 2021Updated 4 years ago
- Scripts used to generate the data/figures contained in "Single Cell Transcriptomics Reveals Cell Type Specific Diversification in Human H…☆13Mar 10, 2023Updated 2 years ago
- A powerful command-line interface for Atlassian Confluence☆31Feb 6, 2026Updated last week
- ☆13Feb 27, 2024Updated last year
- Interactive R package to quantify, analyse and visualise alternative splicing☆37Feb 2, 2026Updated last week
- IPHOMED☆11Jun 11, 2025Updated 8 months ago
- Analysis code and results for dreamlet☆10Jul 18, 2025Updated 6 months ago
- ☆44May 23, 2025Updated 8 months ago
- An open-source python library for the processing of fluorescence video data☆16Jul 5, 2025Updated 7 months ago
- An R package for annotation of circular RNAs☆11Mar 30, 2020Updated 5 years ago
- Learn Japanese using music. Frontend written in Nuxt.js and optional backend using Litserve☆19Jun 2, 2025Updated 8 months ago
- ☆13Aug 12, 2022Updated 3 years ago
- A R framework for pipeline benchmarking, with application to single-cell RNAseq☆42Nov 2, 2021Updated 4 years ago
- Tools for NanoString GeoMx Digital Spatial Profiler data for reading DCC and PKC files to NanoStringGeomxSet class, Normalization and QC.…☆47Sep 29, 2025Updated 4 months ago
- Efficient subtyping of ovarian cancer histopathology whole slide images using active sampling in multiple instance learning☆11Mar 19, 2024Updated last year
- Perform differential expression analysis on cohort-scale single cell datasets using linear mixed models☆21Feb 2, 2026Updated last week
- User-friendly extensions to MeSH☆11Feb 4, 2016Updated 10 years ago