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ggtreeSpace

🕸️Exploring phylomorphospace using 'ggtree'

https://github.com/yulab-smu/ggtreespace

Science Score: 36.0%

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

  • â—‹
    CITATION.cff file
  • âś“
    codemeta.json file
    Found codemeta.json file
  • âś“
    .zenodo.json file
    Found .zenodo.json file
  • â—‹
    DOI references
  • â—‹
    Academic publication links
  • âś“
    Committers with academic emails
    2 of 7 committers (28.6%) from academic institutions
  • â—‹
    Institutional organization owner
  • â—‹
    JOSS paper metadata
  • â—‹
    Scientific vocabulary similarity
    Low similarity (5.5%) to scientific vocabulary

Keywords from Contributors

genomics bioconductor-package rna-seq-analysis single-cell-analysis single-cell-rna-seq u24ca289073 bioconductor gene microbiome
Last synced: 10 months ago · JSON representation

Repository

🕸️Exploring phylomorphospace using 'ggtree'

Basic Info
  • Host: GitHub
  • Owner: YuLab-SMU
  • Language: R
  • Default Branch: devel
  • Homepage:
  • Size: 413 KB
Statistics
  • Stars: 5
  • Watchers: 2
  • Forks: 2
  • Open Issues: 0
  • Releases: 0
Created about 4 years ago · Last pushed 12 months ago
Metadata Files
Readme Changelog

README.md

ggtreeSpace

This package is a comprehensive visualization tool specifically designed for exploring phylomorphospace. It not only simplifies the process of generating phylomorphospace, but also enhances it with the capability to add graphic layers to the plot with grammar of graphics to create fully annotated phylomorphospaces.

Installation

The released version from Bioconductor

r if (!require("BiocManager")) install.packages("BiocManager") BiocManager::install("ggtreeSpace") Alternatively, you can grab the development version from github using devtools:

r if (!requireNamespace("devtools", quietly=TRUE)) install.packages("devtools") devtools::install_github("YuLab-SMU/ggtreeSpace")

Quick Example

``` r library(ggtree) library(phytools) library(ggtreeSpace)

tr <- rtree(15) td <- fastBM(tr, nsim = 2) ggtreespace(tr, td) + geom_tippoint() ```

Author

Owner

  • Name: Bioinformatics Group @ SMU
  • Login: YuLab-SMU
  • Kind: organization
  • Email: gcyu1@smu.edu.cn
  • Location: Guangzhou

Research group led by Prof. Guangchuang Yu in School of Basic Medical Sciences, Southern Medical University

GitHub Events

Total
  • Push event: 2
  • Pull request event: 2
Last Year
  • Push event: 2
  • Pull request event: 2

Committers

Last synced: 10 months ago

All Time
  • Total Commits: 58
  • Total Committers: 7
  • Avg Commits per committer: 8.286
  • Development Distribution Score (DDS): 0.569
Past Year
  • Commits: 10
  • Committers: 4
  • Avg Commits per committer: 2.5
  • Development Distribution Score (DDS): 0.6
Top Committers
Name Email Commits
William Lee 1****8@q****m 25
Guangchuang Yu g****u@g****m 15
William Lee 7****0@u****m 9
xiangpin x****n@1****m 3
A Wokaty a****y@s****u 2
J Wokaty j****y@s****u 2
J Wokaty j****y@u****m 2
Committer Domains (Top 20 + Academic)
sph.cuny.edu: 2 163.com: 1 qq.com: 1

Packages

  • Total packages: 1
  • Total downloads:
    • bioconductor 3,452 total
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 3
  • Total maintainers: 1
bioconductor.org: ggtreeSpace

Visualizing Phylomorphospaces using 'ggtree'

  • Versions: 3
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 3,452 Total
Rankings
Dependent repos count: 0.0%
Average: 15.6%
Dependent packages count: 31.3%
Maintainers (1)
guangchuangyu@gmail.com
Last synced: 11 months ago

Dependencies

DESCRIPTION cran
  • GGally * imports
  • ggplot2 * imports
  • ggtree * imports
  • phytools * imports