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Jouni Siren edited this page May 28, 2023
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Welcome to the vg
wiki!
In a hurry? Check our Quickstart guide.
Variation graphs are powerful objects capable of describing populations of genomes. vg
provides a set of tools to construct, manipulate, and visualize them in the context of genome informatics.
Please feel free to edit and extend this wiki! For any questions or concerns please use the issues page in this repository, or drop by the vg chat on gitter or irc (#vg in freenode).
- File Formats
- Basic Operations
- Considerations for Batch Processing
- Programming with the vg API
- Path Metadata Model
- Graph construction from a reference and a VCF file
- Index types
- Automatic index construction
- Manual index construction
- Building and manipulating GBWTs with vg gbwt
- Dealing with huge datasets
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vg giraffe
: Mapping short reads with Giraffe -
vg giraffe
: Giraffe best practices -
vg mpmap
: Multipath alignments and vg mpmap -
vg map
: Working with a whole genome variation graph