BETTER STRATEGY TO MAP ISOSEQ READS?

[karthickbrlab]

Hii....

Im trting to map isoseq to pangenome graph...which strategy is useful?

Mapping isoseq to spliced graph using giraffe or mpmap...?

Please suggest best way around.
Thanks

[faithokamoto]

vg mpmap might not be efficient enough for long reads, though you can certainly try. Some wiki pages to reference:

• Long‐read RNA‐seq with pre‐existing pangenome (uses Giraffe)
• Transcriptomic analyses

The best analysis method will depend on your specific data and use case.