yozhikoff / segmentationLinks
End-to-end pipeline for segmenting cell nuclei on histology slides
☆16Updated 3 years ago
Alternatives and similar repositories for segmentation
Users that are interested in segmentation are comparing it to the libraries listed below
Sorting:
- ☆30Updated last year
- CAST package☆42Updated last year
- A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.☆27Updated last year
- A single-cell analysis toolkit to jointly analyze samples from distinct conditions☆34Updated 9 months ago
- ☆27Updated 2 years ago
- ☆13Updated 3 years ago
- Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.☆16Updated 4 months ago
- Probabilistic factor models for spatially correlated data. Includes nonnegative and real-valued versions.☆17Updated last year
- Perturbation-response Score (PS) analysis is a method to quantify diverse perturbation responses and discover novel biological insights i…☆17Updated last year
- Interoperability between SpatialData and the Xenium Explorer☆25Updated last year
- Package for the analysis of Transcripts outside segmented cells in ST data☆24Updated last week
- Interactive applications of stlearn☆15Updated 2 years ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆41Updated 10 months ago
- ☆12Updated 2 years ago
- ☆13Updated 7 years ago
- Analysis of imbalanced data and its impacts in a scRNA-seq integration setting☆31Updated 10 months ago
- Spatial reconstruction of dissociated single-cell data☆19Updated 2 years ago
- ☆15Updated 2 years ago
- ☆62Updated last year
- ☆12Updated last year
- A sandbox for benchmarking detection of out-of-reference cells in single-cell genomics data☆13Updated last year
- Port of symphony algorithm of single-cell reference atlas mapping to Python☆33Updated last month
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆65Updated this week
- Spatial direct messaging detected by bivariate Moran☆32Updated 6 months ago
- RNA-velocity informed embeddings for visualizing cellular trajectories☆44Updated 3 years ago
- ☆20Updated 2 years ago
- ☆17Updated 8 months ago
- Weakly supervised learning uncovers phenotypic signatures in single-cell data☆38Updated last month
- ☆25Updated 10 months ago
- https://sparrow-pipeline.readthedocs.io/en/latest/☆33Updated this week