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ClusterGVis

One-step to Cluster and Visualize Gene Expression Matrix

https://github.com/junjunlab/clustergvis

Science Score: 26.0%

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    CITATION.cff file
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    Found .zenodo.json file
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    DOI references
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    Scientific vocabulary similarity
    Low similarity (11.8%) to scientific vocabulary

Keywords

complexheatmap gene-clustering gene-expression mfuzz visualization
Last synced: 6 months ago · JSON representation

Repository

One-step to Cluster and Visualize Gene Expression Matrix

Basic Info
  • Host: GitHub
  • Owner: junjunlab
  • License: other
  • Language: R
  • Default Branch: main
  • Homepage:
  • Size: 19.9 MB
Statistics
  • Stars: 320
  • Watchers: 4
  • Forks: 28
  • Open Issues: 108
  • Releases: 6
Topics
complexheatmap gene-clustering gene-expression mfuzz visualization
Created over 3 years ago · Last pushed 6 months ago
Metadata Files
Readme Changelog License

README.md

ClusterGVis

To enhance clustering and visualization of time-series gene expression data from RNA-Seq experiments, we present the ClusterGVis package. This tool enables concise and elegant analysis of time-series gene expression data in a simple, one-step operation. Additionally, you can perform enrichment analysis for each cluster using the enrichCluster function, which integrates seamlessly with clusterProfiler. ClusterGVis empowers you to create publication-quality visualizations with ease.

Thanks for the contributions for clusterProfiler and ComplexHeatmap!

Requirements

There are some R package to make sure have been installed for better installing ClusterGVis：

r BiocManager::install("SingleCellExperiment")

Installation

You can install the development version of ClusterGVis like so:

``` r

Note: please update your ComplexHeatmap to the latest version!

install.packages("devtools")

devtools::install_github("junjunlab/ClusterGVis") ```

Citation

Jun Zhang (2022). ClusterGVis: One-step to Cluster and Visualize Gene Expression Matrix. https://github.com/junjunlab/ClusterGVis

Documentation

The comprehensive documentation: https://junjunlab.github.io/ClusterGvis-manual/

Interactive web App

https://github.com/junjunlab/ClusterGvis-app

Related blogs

Owner

  • Name: JunJunLao
  • Login: junjunlab
  • Kind: user
  • Location: Nanjing
  • Company: China Pharmaceutical University

路漫漫其修远兮 吾将上下而求索

GitHub Events

Total
  • Create event: 2
  • Commit comment event: 1
  • Release event: 2
  • Issues event: 44
  • Watch event: 79
  • Issue comment event: 108
  • Push event: 44
  • Fork event: 6
Last Year
  • Create event: 2
  • Commit comment event: 1
  • Release event: 2
  • Issues event: 44
  • Watch event: 79
  • Issue comment event: 108
  • Push event: 44
  • Fork event: 6

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 23
  • Total pull requests: 0
  • Average time to close issues: 5 days
  • Average time to close pull requests: N/A
  • Total issue authors: 23
  • Total pull request authors: 0
  • Average comments per issue: 0.48
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 23
  • Pull requests: 0
  • Average time to close issues: 5 days
  • Average time to close pull requests: N/A
  • Issue authors: 23
  • Pull request authors: 0
  • Average comments per issue: 0.48
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • zhihaoKing (2)
  • amateur-boy (2)
  • PingWang7 (1)
  • kangkc16 (1)
  • pengpengyang94 (1)
  • realzhang (1)
  • Baozi9 (1)
  • Always-Stude (1)
  • SunShiFu86 (1)
  • fcbg666 (1)
  • zhangsuaiqi (1)
  • PanSX-Dr (1)
  • Mrk12138 (1)
  • xiahui625649 (1)
  • pandaqiuqiu (1)
Pull Request Authors
  • yanwuanxin (1)
Top Labels
Issue Labels
enhancement (1) documentation (1)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • cran 975 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 3
  • Total maintainers: 1
cran.r-project.org: ClusterGVis

One-Step to Cluster and Visualize Gene Expression Data

  • Versions: 3
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 975 Last month
Rankings
Dependent packages count: 27.2%
Dependent repos count: 33.5%
Average: 49.2%
Downloads: 86.9%
Maintainers (1)
3219030654@stu.cpu.edu.cn
Last synced: 6 months ago

Dependencies

DESCRIPTION cran
  • R >= 2.10 depends
  • Biobase * imports
  • ComplexHeatmap * imports
  • Mfuzz * imports
  • dplyr * imports
  • e1071 * imports
  • factoextra * imports
  • ggplot2 * imports
  • grid * imports
  • jjAnno * imports
  • magrittr * imports
  • purrr * imports
  • reshape2 * imports
  • scales * imports
  • stats * imports