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GATB / DiscoSnp

DiscoSnp is designed for discovering all kinds of SNPs (not only isolated ones), as well as insertions and deletions, from raw set(s) of reads.
https://gatb.inria.fr/software/discosnp/
GNU Affero General Public License v3.0
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Nucleotide diversity from DiscoSnp #41

Closed clorenzo1 closed 1 year ago

clorenzo1 commented 1 year ago

Hi there,

I was wondering if it is possible to calculate nucleotide diversity from DiscoSnp?

Cheers!

pierrepeterlongo commented 1 year ago

Hello

A global ANI computation is impossible to compute with DiscoSnp, as by definition it finds only certain variations (SNPs and small indels). This means that all highly divergent, or conversely, equal parts of the genomes are not detected.

Does that answer your question?

clorenzo1 commented 1 year ago

Hi,

Yes it does thank you!