SRA to FASTQ (workflow)

Workflow title

SRA to FASTQ

Provider

geneXplain GmbH

Workflow overview

Description

This workflow can be used to convert SRA data files (e. g. from NGS/RNA-seq experiments) into FASTQ files. The FASTQ format is widely used by a number of tools and the geneXplain platform is among them; on the other hand, NGS data are often collected in SRA format, thus the conversion of SRA format into FASTQ format is an important function.

In this workflow the input fastq files are subjected to the tool FUSION finder 

http://genexplain-platform.com/bioumlweb/#de=analyses/Galaxy/gene_fusion/fusionfinder

 

The Fusion finder detects fusions and converts the SRA files into FASTQ files which can be used as an input for other workflows. 

 

Note. Working with NGS data in SRA and FASTQ formats requires substantial work space available in your user account. Feel free to contact us (info@genexplain.com) to upgrade your account with additional disk space. 

 

 

Parameters

Input folder

Output folder