CHOLAR

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Automated RNA-seq pipeline for lncRNA indentification

CHOLAR 최신버젼 다운로드

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# CHOLAR

**CHOLAR** short for **CH**aracterization **O**f **L**ncRNA from r**A**w **R**eads).

[![DOI](https://zenodo.org/badge/485251937.svg)](https://zenodo.org/badge/latestdoi/485251937)

## What does CHOLAR do?

It extracts the list of known and novel lncRNAs from any RNA-seq dataset. As of now, the tool is resticted to human datasets, but we are working hard to include other model organism too.

## Installation

### For macOS users

`brew` is a pre-requistic. For information on `brew` visit https://brew.sh/

Download the zip file for CHOLAR from [here][zip] *or*

Download the tar file for CHOLAR from [here][tar]

After download unzip the file using:
```sh
unzip 
```

### For Ubuntu/CentOS users

Download the zip file for CHOLAR from [here][zip] *or*

Download the tar file for CHOLAR from [here][tar]

After download unzip the file using:
```sh
unzip
```

## Configuration

Execute the configure file on LINUX/UNIX system using terminal:

```sh
bash configure.sh
```

This will prompt to give password. Enter it and let the script run.

## Using CHOLAR

Execute CHOLOAR GUI file using:

```sh
bash CHOLAR_GUI.sh
```

1.1 This will pop up a window to input sample names in the box and sample condition separated by comma.

![Input window](https://raw.githubusercontent.com/schosio/CHOLAR/main/src/docu_1.png)

2.2 Then the Annotation file selection will appear (if it appears daunting, just press ok in both dialog box).

![Annotation window](https://raw.githubusercontent.com/schosio/CHOLAR/main/src/docu_2.png)
![Annotation selection](https://raw.githubusercontent.com/schosio/CHOLAR/main/src/docu_3.png)

## Troubleshoot

## Authors

**CHOLAR** is developed by Haneesh J, Anubha Dey and Manjari Kiran (*Department of Systems and Computational Biology, School of Life Sciences, University of Hyderabad, India*).

## How to cite CHOLAR

If you use **CHOLAR** in your publications, you can cite the package as follows:

` CHOLAR: Characterization of LncRNA from raw reads. `

or in BiBTex:

## LICENSE

See the [LICENSE][LIC] file for license rights and limitations.

## Acknowledgement

This work is supported by SERB Startup Grant (SRG/2020/002146) from Department of Science and Technology (DST), India.

[zip]: <https://github.com/schosio/CHOLAR/releases/download/v0.1/CHOLAR-Src-0.1.zip>
[tar]: <https://github.com/schosio/CHOLAR/releases/download/v0.1/CHOLAR-Src-0.1.tar.gz>
[LIC]: <https://github.com/schosio/CHOLAR/blob/main/LICENSE>

CHOLAR

CHOLAR 최신버젼 다운로드

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