lisaClust
Science Score: 57.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
✓DOI references
Found 2 DOI reference(s) in README -
○Academic publication links
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✓Committers with academic emails
3 of 10 committers (30.0%) from academic institutions -
✓Institutional organization owner
Organization sydneybiox has institutional domain (www.sydney.edu.au) -
○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (11.9%) to scientific vocabulary
Keywords from Contributors
Repository
Basic Info
- Host: GitHub
- Owner: SydneyBioX
- Language: R
- Default Branch: devel
- Homepage: https://sydneybiox.github.io/lisaClust/
- Size: 18.4 MB
Statistics
- Stars: 3
- Watchers: 3
- Forks: 1
- Open Issues: 8
- Releases: 0
Metadata Files
README.md
lisaClust
Clustering of Local Indicators of Spatial Association
Overview
lisaClust provides a series of functions to identify and visualise regions of tissue where spatial associations between cell-types is similar. This package can be used to provide a high-level summary of cell-type colocalisation in multiplexed imaging data that has been segmented at a single-cell resolution.
Installation
For the Bioconductor release version, run the following. ```r if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")
BiocManager::install("lisaClust") ```
If you would like the most up-to-date features, install the most recent development version. ```r
Install the development version from Bioconductor:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")
The following initializes usage of Bioc devel
This will update all your Bioconductor packages to devel version
BiocManager::install(version='devel')
BiocManager::install("lisaClust")
Otherwise install the development version from GitHub:
install.packages("devtools")
devtools::install_github("ellispatrick/lisaClust") library(lisaClust) ```
Submitting an issue or feature request
listClust is still under active development. We would greatly appreciate any and
all feedback related to the package.
- R package related issues should be raised here.
- For general questions and feedback, please contact us directly via ellis.patrick@sydney.edu.au.
Authors
- Nicolas Canete
- Ellis Patrick - @TheEllisPatrick
Citation
Patrick, E, Canete, NP, Iyengar, SS, Harman, AN, Sutherland, GT, Yang, P. Spatial analysis for highly multiplexed imaging data to identify tissue microenvironments. Cytometry. 2023. https://doi.org/10.1002/cyto.a.24729
Owner
- Name: Sydney Precision Data Science Centre
- Login: SydneyBioX
- Kind: organization
- Location: Sydney, Australia
- Website: https://www.sydney.edu.au/science/our-research/research-centres/sydney-precision-data-science-centre.html
- Twitter: sydneybioinfo
- Repositories: 76
- Profile: https://github.com/SydneyBioX
SPDSC alliance brings together multiple research groups and junior and senior researchers with shared interests in bioinformatics and computational sciences.
GitHub Events
Total
- Issues event: 4
- Issue comment event: 1
- Push event: 30
- Create event: 1
Last Year
- Issues event: 4
- Issue comment event: 1
- Push event: 30
- Create event: 1
Committers
Last synced: 7 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| Nick | n****r@g****m | 29 |
| Ellis Patrick | e****7@g****m | 21 |
| Ellis Patrick | e****k@s****u | 9 |
| alexq | a****q@m****u | 8 |
| J Wokaty | j****y@s****u | 6 |
| Nitesh Turaga | n****a@g****m | 6 |
| Shreya Rao | s****o@w****u | 6 |
| J Wokaty | j****y@u****m | 4 |
| Shreya Rao | s****o@1****u | 2 |
| rubak | r****k@m****k | 1 |