# massdatabase

**Repository Path**: tidymass/massdatabase

## Basic Information

- **Project Name**: massdatabase
- **Description**: massdatabase
- **Primary Language**: Unknown
- **License**: MIT
- **Default Branch**: main
- **Homepage**: None
- **GVP Project**: No

## Statistics

- **Stars**: 0
- **Forks**: 0
- **Created**: 2022-09-17
- **Last Updated**: 2023-09-03

## Categories & Tags

**Categories**: Uncategorized

**Tags**: None

## README

<!-- README.md is generated from README.Rmd. Please edit that file -->

# massDatabase <img src="man/figures/logo.png" align="right" alt="" width="120" />

[![](https://www.r-pkg.org/badges/version/massdatabase?color=green)](https://cran.r-project.org/package=massdatabase)
[![](https://img.shields.io/github/languages/code-size/tidymass/massdatabase.svg)](https://github.com/tidymass/massdatabase)
[![Dependencies](https://tinyverse.netlify.com/badge/massdatabase)](https://cran.r-project.org/package=massdatabase)
[![](https://img.shields.io/badge/lifecycle-experimental-orange.svg)](https://www.tidyverse.org/lifecycle/#experimental)


`massdatabase` is a part of [tidymass](https://tidymass.github.io/tidymass/)

-------

# About

`massdatabase` is an R package that operates the online public databases and combines with other tools for streamlined compound annotation and pathway enrichment analysis. `massDatabase` is a flexible, simple, and powerful tool that can be installed on all platforms, allowing the users to leverage all the online public databases for biological function mining.

<img src="man/figures/Figure_1.png" align="middle" alt="" width = "100%"/>

# Installation

You can install `massdatabase` from [GitLab](https://gitlab.com/jaspershen/massdatabase)

``` r
if(!require(remotes)){
install.packages("remotes")
}
remotes::install_gitlab("jaspershen/massdatabase")
```
or [Github](https://github.com/tidymass/massdatabase)

``` r
remotes::install_github("tidymass/massdatabase")
```

# Usage

Please see the `Help documents` page to get the instruction of `massDatabase`.

## Need help?

If you have any questions about `massdatabase`, please don’t hesitate to email me (<shenxt@stanford.edu>).

<i class="fa fa-weixin"></i>
[shenzutao1990](https://www.shenxt.info/files/wechat_QR.jpg)

<i class="fa fa-envelope"></i> <shenxt1990@outlook.com>

<i class="fa fa-twitter"></i>
[Twitter](https://twitter.com/xiaotaoshen1990)

<i class="fa fa-map-marker-alt"></i> 
[M339, Alway Buidling, Cooper Lane, Palo Alto, CA 94304](https://www.google.com/maps/place/Alway+Building/@37.4322345,-122.1770883,17z/data=!3m1!4b1!4m5!3m4!1s0x808fa4d335c3be37:0x9057931f3b312c29!8m2!3d37.4322345!4d-122.1748996)

# Citation

If you use `massdatabase` in your publications, please cite this paper:

1. massDatabase: utilities for the operation of the public compound and pathway database. [Web Link](https://www.biorxiv.org/content/10.1101/2022.06.02.494457v1)

2. Shen, X., Yan, H., Wang, C. et al. TidyMass an object-oriented reproducible analysis framework for LC–MS data. Nat Commun 13, 4365 (2022). [Web Link](https://www.nature.com/articles/s41467-022-32155-w).

Thanks very much!