Genestack user guide¶
Welcome to the Genestack user guide!
Genestack is a platform to manage, process and visualize biological data, with a focus on next-generation sequencing (NGS) and microarray data. Genestack is one of the bioinformatic platforms promising to lower the entry barrier to bioinformatics. Our community edition is freely available online for academic and non-commercial users.
No coding skills are required to use the platform, but a basic level of understanding of the sequencing data analysis process and the tools involved is crucial for correct data analysis and results interpretation.
This guide is intended for end-users of the platform. It covers the key concepts of the platform, a detailed walkthrough of the user interface and of the different bioinformatics pipelines available on Genestack. To go back to the Genestack website, click here.
- Genestack key concepts
- Get started with Genestack
- Case studies
- Genestack Platform overview
- Importing data
- Step 1: Getting data into the platform
- Step 2: Format recognition
- Step 3: Editing metainfo
- Data browser
- File manager
- Edit metadata manually
- Import metainfo data from your computer
- Compose file names using metainfo keys
- Make a subset
- Access control model
- Managing users
- Managing groups
- Sharing files with a group
- Introduction to NGS data analysis
- Applications review
- Where do I find data that was shared with me?
- How do I reuse a data flow?
- How can I initialize files?
- How do I create a data flow?
- What is the difference between BWA and Bowtie2?
- How does Genestack process paired-end reads?
- What is the difference between an Datasets and a folder?
- What is the difference between masked and unmasked reference genomes?
- What is the difference between Data Flow Runner and Data Flow Editor?