https://github.com/jasenfinch/hrm
Easily install, load and update R packages for high-resolution metabolomics analyses
https://github.com/jasenfinch/hrm
metabolomics-pipeline
Last synced: about 2 months ago
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Easily install, load and update R packages for high-resolution metabolomics analyses
- Host: GitHub
- URL: https://github.com/jasenfinch/hrm
- Owner: jasenfinch
- License: gpl-3.0
- Created: 2017-08-11T18:53:37.000Z (almost 8 years ago)
- Default Branch: master
- Last Pushed: 2023-03-23T18:35:25.000Z (about 2 years ago)
- Last Synced: 2025-02-10T13:43:40.589Z (3 months ago)
- Topics: metabolomics-pipeline
- Language: R
- Homepage: https://jasenfinch.github.io/hrm/
- Size: 534 KB
- Stars: 1
- Watchers: 2
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.Rmd
- Changelog: NEWS.md
- License: LICENSE.md
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%"
)
```
# hrm
[](https://lifecycle.r-lib.org/articles/stages.html#stable)
[](https://github.com/jasenfinch/hrm/actions/workflows/R-CMD-check.yaml)
[](https://app.codecov.io/gh/jasenfinch/hrm?branch=master)
[](https://GitHub.com/jasenfinch/hrm/releases/)
Easily install, load and update an R package ecosystem for performing analyses of high resolution metabolomics data.
`hrm` packages include:
* [metaboData](https://aberhrml.github.io/metaboData) - Example data sets for metabolomics analyses
* [grover](https://jasenfinch.github.io/grover) - Web API Framework for Mass Spectrometry Data Transfer
* [binneR](https://aberhrml.github.io/binneR) - Spectral Processing for High Resolution Flow Infusion Mass Spectrometry
* [metabolyseR](https://jasenfinch.github.io/metabolyseR) - A tool kit for pre-treatment, modelling, feature selection and correlation analyses of metabolomics data
* [profilePro](https://jasenfinch.github.io/profilePro) - Unified Input and Output for Processing of Metabolomic Profiling Experiments
* [mzAnnotation](https://aberhrml.github.io/mzAnnotation) - Tools for putative annotation of accurate m/z from electrospray ionisation mass spectrometry data
* [assignments](https://aberhrml.github.io/assignments) - Molecular formula assignment for high resolution ESI metabolomics
* [construction](https://jasenfinch.github.io/construction) - Consensus structural classifications for putative molecular formula assignments
* [riches](https://jasenfinch.github.io/riches) - Structural and functional enrichment for metabolomics data
* [metaboMisc](https://jasenfinch.github.io/metaboMisc) - A collection of miscellaneous helper and linker functions for metabolomics analyses
* [metaboWorkflows](https://jasenfinch.github.io/metaboWorkflows) - Workflow Project Templates for Metabolomics Analyses
## Installation
Install the `hrm` package from GitHub using:
```{r,eval=FALSE}
remotes::install_github('jasenfinch/hrm')
```
### Usage
Loading the `hrm` packages will load the included R packages.
```{r load}
library(hrm)
```
Alteratively, these packages can be loaded using the following, without loading the `hrm` package directly.
```{r load_alt,eval=FALSE}
hrm::hrmAttach()
```
A vector of the current `hrm` packages can be found by:
```{r packages}
hrmPackages()
```
`hrm` associated packages can be updated using:
```{r update,eval=FALSE}
hrmUpdate()
```