# URD

**Repository Path**: kiki1017/URD

## Basic Information

- **Project Name**: URD
- **Description**: URD - Reconstruction of Branching Developmental Trajectories 另外一种拟时间分析方法，文章发布在science上面
- **Primary Language**: R
- **License**: GPL-3.0
- **Default Branch**: master
- **Homepage**: None
- **GVP Project**: No

## Statistics

- **Stars**: 0
- **Forks**: 1
- **Created**: 2020-07-18
- **Last Updated**: 2020-12-19

## Categories & Tags

**Categories**: Uncategorized

**Tags**: None

## README

# URD

**URD** is an R package designed for reconstructing transcriptional trajectories underlying specification or differentiation processes in the form of a branching tree, using single cell RNA-sequencing data. It is named after the [Norse mythological figure](https://en.wikipedia.org/wiki/Urdr) who nurtures the world tree and decides all fates.

## Installation

* To install, follow the instructions in [INSTALL.md](INSTALL.md)

* To get started, check out the Quick Start Tutorial: ([View](Analyses/QuickStart/URD-QuickStart-AxialMesoderm.md)) ([Download](Analyses/QuickStart/URD-QuickStart-AxialMesoderm.Rmd))

* The processed zebrafish embryogenesis URD object from the manuscript can be downloaded from the [Broad Single-cell Portal](https://portals.broadinstitute.org/single_cell/data/public/single-cell-reconstruction-of-developmental-trajectories-during-zebrafish-embryogenesis?filename=URD_Zebrafish_Object.rds) (requires log-in).

## Version History

#### 2018/04/30:
Version 1.0 released! Our manuscript, "Single-cell reconstruction of developmental trajectories during zebrafish embryogenesis" is online!