<div style=" height:200px; width:200px; float: left; margin-right: 30px;">

```{image} https://gitlab.subcom.tech/bitia/bitia-cli/-/raw/5-enable-docs/docs/source/img/BiTIA_New_Age.jpg
:target: https://bitia.gitlab.subcom.tech/bitia-cli/
```

</div>

# BioInformatics Tool for Infrastructure Automation(BiTIA)

<p style="margin: auto;
  width: 50%;
  border: 3px;
  padding: 10px;">

```{image} https://img.shields.io/pypi/v/bitia.svg
:target: https://pypi.python.org/pypi/bitia
```

```{image} https://img.shields.io/pypi/pyversions/bitia.svg
:target: https://www.python.org
```
</p>

Welcomme to BiTIA Documentation!

BiTIA is a tool that simplifies the infrastructure required to run complex bioinformatics pipelines. BiTIA plays well with the existing workflow managements systems such as [snakemake](https://snakemake.readthedocs.io/en/stable/), [gnu-Make](https://www.gnu.org/software/make/), etc.

BiTIA has two components: **bitia-cli** and **bitia-runner**.
BiTIA CLI is on the clientside and allows clients to submit tasks to the bitia server.
BiTIA runner is on the serverside and operates the given tasks to produce results.

## **bitia-cli**
Most users only need the `bitia-cli` tool to submit tasks.
BiTIA CLI creates a zip file of the user input(pipeline) containing a unique hash and ships it to the server.

[see some examples]: examples

```{toctree}
:hidden: true

getting_started/Installation
getting_started/Working

```

***


If you want to learn how to use BiTIA and installation, check out the following resources:

### **GETTING STARTED**

- To Learn about Bio-Informatics pipelines ofs RNA-seq analysis refer 
[Bioinformatics pipelines](https://docs.gdc.cancer.gov/Data/Bioinformatics_Pipelines/Expression_mRNA_Pipeline/)


- **REQUIREMENTS**
  - Python 3.8+
- [**INSTALLATION & CONFIGURATION**](getting_started/Installation.md)

- To Understand working with BiTIA refer [Working with BiTIA CLI](getting_started/Working.md)  


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