On 10.04.20 16:55, James Procter wrote:
Thanks for finding the mummer4 package, Ben.
On 10/04/2020 12:44, Ben Tris wrote:
I don't understand that search string, can't make up what exactly was
searched on.
For the record, that link was to papers citing Kurtz 2004 - in
scholar's usual unreadable api style.
The https://mummer4.github.io/ <https://mummer4.github.io/> homepage
cites the 2018 PLOS article as the canonical citation:
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005944
<https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005944>
This paper suggests two innovations for mummer4 - longer genomes (not
directly relevant for covid19) and parallelisation. I would recommend
prioritising mummer3 over 4 but ultimately the majority of
bioinformaticians will prefer mummer4.
I think mummer4 should become a separate package
Best,
Steffen
