Installation

Using this software

0. For impatient users
1. Data inputs
- Coordinate system
2. Create a project
3. Annotate a project
- Functional categories
- Using user annotation track
4. Filter for quality scores
5. Main user interface
6. SVA genome browser
- Sections overview
- Identified variants
- Public data
7. SVA tables
- SNV
- INDEL
- SV
8. Selecting genes or regions
- Gene symbol
- Bio-type
- Bio-pathway or GO
- OMIM disorder
- Genomic region
9. Analysis
- Gene prioritization
- Variant prioritization
- Fisher's exact test
10. Exome or targeted capture sequencing
A command line tool
FAQ
Requests and discussions

Using SVA Analysis functions

 

Analysis functions allow researchers to consider the genomic context and potential functional consequences of variants, in order to help identify the genetic variants that are associated with or responsible for the biological traits or medical outcomes of interest. Some analysis functions also use statistical calculations to determine trends that might otherwise be difficult to extract from whole genome sequence data.

Analysis functions are found under the 'Analysis' menu in SVA. Analysis functions output .txt or .csv files.

In the following pages, the following 'Analysis' functions will be introduced:

1. Gene Prioritization

2. Variant Prioritization

3. Fisher's exact test

 
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