Science Score: 20.0%
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
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○.zenodo.json file
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○DOI references
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✓Academic publication links
Links to: ncbi.nlm.nih.gov -
✓Committers with academic emails
2 of 3 committers (66.7%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (10.1%) to scientific vocabulary
Repository
Manhattan++
Basic Info
Statistics
- Stars: 28
- Watchers: 1
- Forks: 5
- Open Issues: 2
- Releases: 0
Metadata Files
README.md
MANHATTAN++
MANHATTAN++ is software to generate a transposed manhattan heatmap, implemented in R.
Getting Started
You need to install the latest version of R The R package can be run on Windows and Linux, you must specify paths to the filenames you are using as input and output.
To install the software from the GIT repository: ``` install.packages("devtools") library(devtools)
install_github("cgrace1978/manhplot", dependencies = T, force = T) ```
The following command will run the plot with default data in the package. The pdf (test.pdf) will be created in the current working directory in R (This can be viewed using the getwd() command): ``` library(manhplot)
infile<-system.file("extdata","cad.add.160614_manhformat.txt.gz",package = "manhplot") configfile<-system.file("extdata","config.txt", package = "manhplot") snpfile<-system.file("extdata","56cad.add.160614.variants.txt", package = "manhplot")
Run manhattan++ with the default paramaters and files included in the package
manhplusplot(infile = infile,outfile = "test", configfile = configfile, snpfile = snpfile) ``` For more information on using manhattan++ please visit the Manhattan++ wiki
Citation
To use Manhattan++ please cite the following paper:
Grace et al
Manhattan++: displaying genome-wide association summary statistics with multiple annotation layers
BMC Bioinformatics 2019; 20(1):610
PubMed: 31775616
Owner
- Name: Chris Grace
- Login: cgrace1978
- Kind: user
- Company: Oxford University
- Website: https://www.rdm.ox.ac.uk/people/christopher-grace
- Repositories: 2
- Profile: https://github.com/cgrace1978
GitHub Events
Total
- Watch event: 2
Last Year
- Watch event: 2
Committers
Last synced: over 3 years ago
All Time
- Total Commits: 123
- Total Committers: 3
- Avg Commits per committer: 41.0
- Development Distribution Score (DDS): 0.455
Top Committers
| Name | Commits | |
|---|---|---|
| Christopher Grace | c****e@W****K | 67 |
| Chris Grace | c****e@w****k | 49 |
| Anuj Goel | 3****1@u****m | 7 |
Committer Domains (Top 20 + Academic)
Packages
- Total packages: 1
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Total downloads:
- cran 237 last-month
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 2
- Total maintainers: 1
cran.r-project.org: manhplot
The Manhattan++ Plot
- Homepage: https://github.com/cgrace1978/manhplot/
- Documentation: http://cran.r-project.org/web/packages/manhplot/manhplot.pdf
- License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
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Latest release: 1.1
published over 6 years ago
Rankings
Maintainers (1)
Dependencies
- R >= 3.4.0 depends
- ggplot2 * imports
- ggrepel * imports
- gridExtra * imports
- reshape2 * imports
- R.utils * suggests
- testthat * suggests