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acorg / Racmacs

Racmacs R package for performing antigenic cartography
https://acorg.github.io/Racmacs/
GNU Affero General Public License v3.0
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Difference between optimizeMap() and make.acmap()? #152

Closed drserajames closed 1 year ago

drserajames commented 1 year ago 
          Hi Sarah. Thanks for kind help. Could please let me know that what's the difference between optimizeMap() and make.acmap()?

Originally posted by @judyssister in https://github.com/acorg/Racmacs/issues/130#issuecomment-1687721242

drserajames commented 1 year ago

Hi @judyssister - I also made this a new issue as it's a new topic.

From the help file for make.acmap

This is a wrapper function for first making a map with table data then, running optimizations to make the map otherwise done with acmap() followed by optimizeMap()

Basically, make.acmap takes your titre data and makes in into the right format for running optimizeMap. If you have your titre data already saved in the right format, you can just read it in and use optimizeMap. Or if you have used make.acmap and you want to run some more optimisations on your map, you can use optimizeMap.

Hope this helps. Please reopen this issue if this isn't clear.

judyssister commented 1 year ago

Thanks, Sarah. Your response always helps me a lot :)

drserajames commented 1 year ago

Great! Please keep reaching out when you have issues. We really want people to use Racmacs to do good science.