https://github.com/mzarowka/hsitools

Hyperspectral core scanning data processing in R
https://github.com/mzarowka/hsitools

geology geosciences paleoclimate paleolimnology spatial

Last synced: 3 days ago
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Hyperspectral core scanning data processing in R

• Host: GitHub
• URL: https://github.com/mzarowka/hsitools
• Owner: mzarowka
• License: other
• Created: 2024-01-10T20:08:49.000Z (12 months ago)
• Default Branch: main
• Last Pushed: 2024-10-24T23:18:35.000Z (about 2 months ago)
• Last Synced: 2024-10-25T07:34:41.211Z (about 2 months ago)
• Topics: geology, geosciences, paleoclimate, paleolimnology, spatial
• Language: R
• Homepage: https://mzarowka.github.io/HSItools/
• Size: 32.1 MB
• Stars: 1
• Watchers: 2
• Forks: 0
• Open Issues: 21
• Metadata Files:
  • Readme: README.Rmd
  • Changelog: NEWS.md
  • License: LICENSE

Awesome Lists containing this project

README

        
---

output: github_document

---

```{r, include = FALSE}

knitr::opts_chunk$set(

  collapse = TRUE,

  comment = "#>",

  fig.path = "man/figures/README-",

  out.width = "100%"

)

```

# HSItools

[![R-CMD-check](https://github.com/mzarowka/HSItools/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/mzarowka/HSItools/actions/workflows/R-CMD-check.yaml)

HSItools is an R package to process and visualize hyperspectral core scanning data.

![HSItools logo](man/figures/package_logo.png){width="150"}

## Installation

You can install the development version of HSItools like so:

``` r

# install.packages("pak")

# pak::pak("mzarowka/HSItools)

```

## Book

An extensive tutorial is available at: 

## Example

The basic workflow includes running the shiny app to choose analysis options and visually interact with the core image. After this, reflectance is calculated and all subsequent operations use reflectance or its subsets.

```{r example, include=TRUE, eval=FALSE}

library(HSItools)

# Run shiny app and store results for further processing

core <- run_core()

# Get reflectance, normalize the capture

reflectance <- core |>

  prepare_core()

# Create RGB preview and write to file

rgb_preview <- reflectance |>

  stretch_raster_full(reflectance, ext = "tif", write = TRUE)

# Plot RGB preview

rgb_plot <- reflectance |>

  plot_raster_rgb(reflectance)

```

Maurycy Żarczyński is founded by the Polish National Agency for Academic Exchange (BPN/BEK/2021/1/00133).

![NAWA logo](man/figures/nawa_logo.png){width="192"}