.. _Getting started:
Getting started
===============

Currently, there are two versions:  `BrainTrawler Mouse <https://braintrawler.vrvis.at/index-mouse.html>`_
and `BrainTrawler Human <https://braintrawler.vrvis.at/index-human.html>`_ .

When starting BrainTrawler, the first page will look like this: 

.. image:: _images/bt_start.png
  :width: 800
  :alt: Tabs of BrainTrawler
  
On top, you see several tabs. Each tab represents a workflow, see :ref:`Workflows` 
for a description of the individual tabs.

.. image:: _images/tabs.png
  :width: 800
  :alt: Tabs of BrainTrawler
  
The workflows you can do with BrainTrawler are: 

**LITE:** This workflow serves as a starting point for dataset exploration: 
Here, dataset coverage per dataset (e.g. brain region, celltype, phenotype,...) 
is visualized as a heatmap.

**Browse Database:** This workflow represents the starting point for all other 
workflows. The user can browse the data collections and add it to the workspace list. 

**Network Query:** Here, the user can execute target/source queries to explore 
local brain network connectivity visualized in an anatomical context (2D/3D 
rendering, bar charts). 

**Network Analysis:** Connectivity can be analyzed and compared as region-level 
networks on different anatomical scales.

**Gene Expression Query:** In this workflow, gene expression queries can be 
performed to see which genes are specific for certain brain regions.

**Gene Expression Analysis:** Here, one can compare the gene expression for 
different brain regions  or parts of a network.  
  
The list of the public Brain Transcriptomic And Connectivity Data
(BrainTACO), you can investigate with BrainTrawler, can be found 
:ref:`Data sources` . 


Some more detailed description of principles and single elements of BrainTrawler are described in
:ref:`Basic principles` and :ref:`Common UI elements`.

Of interest could also be our video about 
`The Exploration of Heterogeneous Spatial Big Brain Data <https://www.youtube.com/watch?v=SndzRUw3Oic>`_
.