SplitThreader

SplitThreader is an interactive web application for analysis of rearrangements in a cancer genome.

SplitThreader is available online at http://splitthreader.com.

Screenshots:

If you need to deploy SplitThreader locally, here are the steps:

Install XAMPP on your computer (includes Apache and PHP)
Using the Terminal, go to the htdocs folder created during the install. On a Mac, the folder is located at /Applications/XAMPP/htdocs/
```
cd /Applications/XAMPP/htdocs/
```

Clone this repository into the htdocs folder

git clone https://github.com/marianattestad/splitthreader

Open up permissions for user_data and user_uploads so new files can be created in those directories
```
chmod 777 user_uploads
chmod 777 user_data
```
Then go to a web browser such as Chrome, Firefox, or Safari (Not tested on IE) and type into the url box:
```
localhost/splitthreader
```
You may have to change the Python path for apache in order to be able to run SplitThreader

Name		Name	Last commit message	Last commit date
Latest commit History 177 Commits
bin		bin
css		css
images		images
js		js
resources/annotation		resources/annotation
user_data		user_data
user_uploads		user_uploads
.DS_Store		.DS_Store
.gitignore		.gitignore
LICENSE		LICENSE
README.md		README.md
SplitThreader_tests.html		SplitThreader_tests.html
analysis.php		analysis.php
check_progress.php		check_progress.php
example_copycat.txt		example_copycat.txt
example_lumpy.vcf		example_lumpy.vcf
example_variants.bedpe		example_variants.bedpe
example_variants.csv		example_variants.csv
file_upload.php		file_upload.php
header.html		header.html
index.php		index.php
info.php		info.php
input_validation.php		input_validation.php
run_algorithm.php		run_algorithm.php
title.html		title.html
vis.php		vis.php