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spatialFDA

a package to compute spatial metrics and comparing them using functional data analysis

https://github.com/mjemons/spatialfda

Science Score: 36.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    1 of 3 committers (33.3%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (13.8%) to scientific vocabulary
Last synced: 10 months ago · JSON representation

Repository

a package to compute spatial metrics and comparing them using functional data analysis

Basic Info
  • Host: GitHub
  • Owner: mjemons
  • Language: R
  • Default Branch: devel
  • Size: 336 KB
Statistics
  • Stars: 3
  • Watchers: 1
  • Forks: 1
  • Open Issues: 3
  • Releases: 0
Created about 2 years ago · Last pushed 11 months ago
Metadata Files
Readme Changelog License

README.Rmd 

---
output: github_document
---



```{r, include = FALSE}
knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = "man/figures/README-",
  out.width = "20%",
  fig.align = 'right'
)
```

# spatialFDA

[![R-CMD-check](https://github.com/mjemons/spatialFDA/actions/workflows/R-CMD-check.yaml/badge.svg?branch=devel)](https://github.com/mjemons/spatialFDA/actions/workflows/R-CMD-check.yaml)

![](inst/extdata/spatialFDA.png){width=20%}

spatialFDA is a tool to calculate spatial statistics functions on a `SpatialExperiment`
object using the `spatstat` library. It contains functions to plot these spatial statistics functions. In addition, users can compare the statial statistics functions using functional data analysis. Here, we use the `refund` library. 

## Installation

You can install the official released `Bioconductor` version of `spatialFDA` via

``` r
if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("spatialFDA")
```

You can install the development version of `spatialFDA` from [GitHub](https://github.com/) with:

``` r
# install.packages("devtools")
devtools::install_github("mjemons/spatialFDA")
```

## Disclaimer

This package is still under active development, the content is therefore subject to change. Please refer to the `Bioconductor` releases for stable versions. 

## Contact

In case you have suggestions to `spatialFDA` please consider opening an issue to this repository.

Owner

  • Name: Martin Emons
  • Login: mjemons
  • Kind: user
  • Location: Zurich
  • Company: University of Zurich

PhD Student in Statistical Bioinformatics @UZH

GitHub Events

Total
  • Issues event: 3
  • Watch event: 3
  • Delete event: 2
  • Issue comment event: 3
  • Push event: 33
  • Pull request event: 4
  • Fork event: 1
  • Create event: 1
Last Year
  • Issues event: 3
  • Watch event: 3
  • Delete event: 2
  • Issue comment event: 3
  • Push event: 33
  • Pull request event: 4
  • Fork event: 1
  • Create event: 1

Committers

Last synced: 10 months ago

All Time
  • Total Commits: 167
  • Total Committers: 3
  • Avg Commits per committer: 55.667
  • Development Distribution Score (DDS): 0.09
Past Year
  • Commits: 167
  • Committers: 3
  • Avg Commits per committer: 55.667
  • Development Distribution Score (DDS): 0.09
Top Committers
Name Email Commits
mjemons m****s@g****m 152
sgunz s****z@u****h 13
A Wokaty a****y@s****u 2
Committer Domains (Top 20 + Academic)
sph.cuny.edu: 1 uzh.ch: 1

Issues and Pull Requests

Last synced: 11 months ago

All Time
  • Total issues: 1
  • Total pull requests: 0
  • Average time to close issues: about 1 year
  • Average time to close pull requests: N/A
  • Total issue authors: 1
  • Total pull request authors: 0
  • Average comments per issue: 1.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • sgunz (1)
  • lmweber (1)
  • mjemons (1)
Pull Request Authors
  • mjemons (2)
Top Labels
Issue Labels
enhancement (1)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • bioconductor 1,990 total
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 1
  • Total maintainers: 1
bioconductor.org: spatialFDA

A Tool for Spatial Multi-sample Comparisons

  • Versions: 1
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 1,990 Total
Rankings
Dependent repos count: 0.0%
Dependent packages count: 30.3%
Average: 40.6%
Downloads: 91.6%
Maintainers (1)
martin.emons@uzh.ch
Last synced: 11 months ago