coreCT
R package for programmatic analysis of sediment cores scanned using computed tomography imaging
Science Score: 23.0%
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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
Found 3 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
○Committers with academic emails
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○Institutional organization owner
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○Scientific vocabulary similarity
Low similarity (15.1%) to scientific vocabulary
Keywords
Repository
R package for programmatic analysis of sediment cores scanned using computed tomography imaging
Basic Info
- Host: GitHub
- Owner: troyhill
- Language: R
- Default Branch: master
- Homepage: https://cran.r-project.org/package=coreCT
- Size: 1.91 MB
Statistics
- Stars: 3
- Watchers: 1
- Forks: 2
- Open Issues: 1
- Releases: 0
Topics
Metadata Files
README.md
coreCT
Installing coreCT
coreCT is available on CRAN and can be installed from the R console:
install.packages("coreCT")
Once installed, the package can be loaded:
library(coreCT)
About coreCT
coreCT is an R package for programmatic analysis of sediment cores that have been digitized by computed tomography. The package converts Hounsfield Units to material classes (e.g., peat, root/rhizome, sand) and quantifies component masses and volumes. To get started quickly, check out the package vignette.
Sediment core characterization
coreCT output can be easily plotted using the reshape2 and ggplot2 packages (figures below were produced using the same code included in the help file examples).
Figure 1. Volumes of various compartments in a sediment core
coreCT also quantifies the number of root/rhizome particles in a user-defined range of size classes, and calculates the external surface area and volume attributable to each size class. This allows the estimation of belowground plant organ contributions to total soil volume and, dividing by core area, elevation.
Figure 2. Number (left) and combined volume (right) of root/rhizome particles in each of four size classes.
License and disclaimer
This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program. If not, see https://www.gnu.org/licenses/.
Owner
- Name: Troy Hill
- Login: troyhill
- Kind: user
- Repositories: 30
- Profile: https://github.com/troyhill
GitHub Events
Total
Last Year
Committers
Last synced: almost 3 years ago
All Time
- Total Commits: 189
- Total Committers: 3
- Avg Commits per committer: 63.0
- Development Distribution Score (DDS): 0.238
Top Committers
| Name | Commits | |
|---|---|---|
| Troy Hill | h****y@g****m | 144 |
| Troy Hill | H****y@g****m | 38 |
| thill | t****l@i****v | 7 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 2
- Total pull requests: 1
- Average time to close issues: about 2 hours
- Average time to close pull requests: 2 minutes
- Total issue authors: 1
- Total pull request authors: 1
- Average comments per issue: 0.0
- Average comments per pull request: 0.0
- Merged pull requests: 1
- 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
Top Authors
Issue Authors
- troyhill (2)
Pull Request Authors
- troyhill (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
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Total downloads:
- cran 322 last-month
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 6
- Total maintainers: 1
cran.r-project.org: coreCT
Programmatic Analysis of Sediment Cores Using Computed Tomography Imaging
- Homepage: https://github.com/troyhill/coreCT
- Documentation: http://cran.r-project.org/web/packages/coreCT/coreCT.pdf
- License: GPL-3
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Latest release: 1.3.3
published about 5 years ago
Rankings
Maintainers (1)
Dependencies
- R >= 3.0 depends
- igraph * depends
- oro.dicom * depends
- plyr * depends
- raster * depends
- covr * suggests
- knitr * suggests
- rmarkdown * suggests
- testthat * suggests