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README.Rmd
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README.Rmd
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---
output: github_document
---
```{r, include = FALSE}
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>",
fig.align = 'center',
fig.path = "man/figures/README-",
dev = "svglite",
message = FALSE,
warning = FALSE,
tidy = FALSE
)
```
[](https://github.com/ncss-tech/sharpshootR/actions)
[](http://cran.r-project.org/web/packages/sharpshootR)
[](https://cran.r-project.org/package=sharpshootR)
[](http://ncss-tech.github.io/sharpshootR/)
# sharpshootR
This package contains a mish-mash of functionality and sample data related to the daily business of soil survey operations with the USDA-NRCS. Many of the functions are highly specialized and inherit default arguments from the names used by the various NCSS (National Cooperative Soil Survey) databases.
## Installation
Get the stable version from CRAN:
```{r eval = FALSE}
install.packages('sharpshootR', dep = TRUE)
```
Get the development version from Github, after installing the CRAN version + dependencies:
```{r eval = FALSE}
remotes::install_github("ncss-tech/sharpshootR", dependencies=FALSE, upgrade=FALSE, build=FALSE)
```
### Install Suggested Packages
```{r eval = FALSE}
p <- c("MASS", "spdep", "circlize", "rvest", "xml2", "terra",
"raster", "exactextractr", "httr", "jsonlite", "igraph",
"dendextend", "testthat", "hydromad", "latticeExtra",
"farver", "venn", "gower", "daymetr", "elevatr",
"Evapotranspiration", "zoo", "SoilTaxonomy", "sf", "Hmisc"
)
install.packages(p)
```
## Website
[http://ncss-tech.github.io/AQP/](http://ncss-tech.github.io/AQP/)
## Examples
```{r fig.width=9, fig.height=5}
library(sharpshootR)
library(aqp)
data(loafercreek, package = 'soilDB')
# generalize horizon names using REGEX rules
n <- c('Oi', 'A', 'BA','Bt1','Bt2','Bt3','Cr','R')
p <- c('O', '^A$|Ad|Ap|AB','BA$|Bw',
'Bt1$|^B$','^Bt$|^Bt2$','^Bt3|^Bt4|CBt$|BCt$|2Bt|2CB$|^C$','Cr','R')
loafercreek$genhz <- generalize.hz(loafercreek$hzname, n, p)
# remove non-matching generalized horizon names
loafercreek$genhz[loafercreek$genhz == 'not-used'] <- NA
loafercreek$genhz <- factor(loafercreek$genhz)
# aggregate color data, this function is from the `aqp` package
a <- aggregateColor(loafercreek, 'genhz', k = 8)
# plot
par(mar=c(4.5, 1.25, 1, 0.25))
aggregateColorPlot(a, print.n.hz = TRUE)
```
## Citation
```{r}
citation("sharpshootR")
```
## Quick Reference
### Visualization
* [`aggregateColorPlot`](http://ncss-tech.github.io/sharpshootR/reference/aggregateColorPlot.html)
* [`aspect.plot`](http://ncss-tech.github.io/sharpshootR/reference/aspect.plot.html)
* [`diagnosticPropertyPlot`](http://ncss-tech.github.io/sharpshootR/reference/diagnosticPropertyPlot.html)
* [`plotAvailWater`](http://ncss-tech.github.io/sharpshootR/reference/plotAvailWater.html)
* [`plotProfileDendrogram`](http://ncss-tech.github.io/sharpshootR/reference/plotProfileDendrogram.html)
* [`plotSoilRelationGraph`](http://ncss-tech.github.io/sharpshootR/reference/plotSoilRelationGraph.html)
* [`plotSoilRelationChordGraph`](http://ncss-tech.github.io/sharpshootR/reference/plotSoilRelationChordGraph.html)
* [`plotTransect`](http://ncss-tech.github.io/sharpshootR/reference/plotTransect.html)
* [`SoilTaxonomyDendrogram`](http://ncss-tech.github.io/sharpshootR/reference/SoilTaxonomyDendrogram.html)
* [`vizGeomorphicComponent`](http://ncss-tech.github.io/sharpshootR/reference/vizHillslopePosition.html)
* [`vizHillslopePosition`](http://ncss-tech.github.io/sharpshootR/reference/vizHillslopePosition.html)
* [`vizFlatsPosition`](http://ncss-tech.github.io/sharpshootR/reference/vizFlatsPosition.html)
* [`vizTerracePosition`](http://ncss-tech.github.io/sharpshootR/reference/vizTerracePosition.html)
* [`vizMountainPosition`](http://ncss-tech.github.io/sharpshootR/reference/vizMountainPosition.html)
* [`vizAnnualClimate`](http://ncss-tech.github.io/sharpshootR/reference/vizAnnualClimate.html)
* [`plotWB`](http://ncss-tech.github.io/sharpshootR/reference/plotWB.html)
* [`plotWB_lines`](http://ncss-tech.github.io/sharpshootR/reference/plotWB_lines.html)
### Climate
* [`monthlyWB`](http://ncss-tech.github.io/sharpshootR/reference/monthlyWB.html)
* [`simpleWB`](http://ncss-tech.github.io/sharpshootR/reference/simpleWB.html)
* [`dailyWB`](http://ncss-tech.github.io/sharpshootR/reference/dailyWB.html)
* [`dailyWB_SSURGO`](http://ncss-tech.github.io/sharpshootR/reference/dailyWB_SSURGO.html)
* [`CDECquery`](http://ncss-tech.github.io/sharpshootR/reference/CDECquery.html)
* [`CDECsnowQuery`](http://ncss-tech.github.io/sharpshootR/reference/CDECsnowQuery.html)
* [`FFD`](http://ncss-tech.github.io/sharpshootR/reference/FFD.html)
* [`FFDplot`](http://ncss-tech.github.io/sharpshootR/reference/FFD.html)
* [`PCP_plot`](http://ncss-tech.github.io/sharpshootR/reference/PCP_plot.html)
* [`waterDayYear`](http://ncss-tech.github.io/sharpshootR/reference/waterDayYear.html)
### Spatial Data
* [`constantDensitySampling`](http://ncss-tech.github.io/sharpshootR/reference/constantDensitySampling.html)
* [`generateLineHash`](http://ncss-tech.github.io/sharpshootR/reference/generateLineHash.html)
* [`polygonAdjacency`](http://ncss-tech.github.io/sharpshootR/reference/polygonAdjacency.html)
* [`PLSS2LL`](http://ncss-tech.github.io/sharpshootR/reference/PLSS2LL.html)
* [`LL2PLSS`](http://ncss-tech.github.io/sharpshootR/reference/LL2PLSS.html)
* [`sample.by.poly`](http://ncss-tech.github.io/sharpshootR/reference/sample.by.poly.html)
* [`samplingStability`](http://ncss-tech.github.io/sharpshootR/reference/samplingStability.html)
* [`sampleRasterStackByMU`](http://ncss-tech.github.io/sharpshootR/reference/sampleRasterStackByMU.html)
### Utility
* [`component.adj.matrix`](http://ncss-tech.github.io/sharpshootR/reference/component.adj.matrix.html)
* [`dist.along.grad`](http://ncss-tech.github.io/sharpshootR/reference/dist.along.grad.html)
### Misc.
* [`percentileDemo`](http://ncss-tech.github.io/sharpshootR/reference/percentileDemo.html)
* [`multinominal2logical`](http://ncss-tech.github.io/sharpshootR/reference/multinominal2logical.html)
* [`site_photos_kml`](http://ncss-tech.github.io/sharpshootR/reference/site_photos_kml.html)
## Related Packages
* [`aqp`](https://github.com/ncss-tech/aqp)
* [`soilDB`](https://github.com/ncss-tech/soilDB)
## Related Presentations / Posters
* [Numerical Classification of Soil Profiles (2023 NCSS Meetings)](https://ncss-tech.github.io/AQP/presentations/2023-NCSS-NCSP-poster.pdf)