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T004: Switch to use fingerprint generators #330

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greglandrum
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@greglandrum greglandrum commented Apr 19, 2023

Description

It's now recommended to use the RDKit's fingerprint generator interface whenever possible instead of calling the individual fingerprinting functions. This PR updates Tutorial 4 to use fingerprint generators in the way that I currently recommend.

Unfortunately there is not (yet?) a fingerprint generator for the MACCS keys, so I've only changed things for the Morgan fingerprints.

I made a couple of other small changes to the talktorial... hopefully you like those too. :-)

Todos

Notable points that this PR has either accomplished or will accomplish.

  • Switch to using the fingerprint generator interface to generate Morgan fingerprints

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Status

  • Ready to go

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@AndreaVolkamer
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@greglandrum thanks a lot! The changes look great!

@hamzaibrahim21 can you please apply the change also to all other notebooks where applicable.

@AndreaVolkamer AndreaVolkamer added the enhancement New feature or request label Apr 26, 2023
@dominiquesydow dominiquesydow changed the title Switch Tutorial 4 to use fingerprint generators T004: Switch to use fingerprint generators May 11, 2023
@dominiquesydow dominiquesydow changed the base branch from master to dev May 15, 2023 19:09
@dominiquesydow dominiquesydow changed the base branch from dev to switch-fp-generator May 15, 2023 19:17
@dominiquesydow dominiquesydow self-requested a review May 15, 2023 19:42
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Hi @greglandrum, thanks a lot for this update! :) I am merging this into a branch that takes care of the other notebooks in need of this switch.

@dominiquesydow dominiquesydow merged commit 6cd3519 into volkamerlab:switch-fp-generator May 15, 2023
@greglandrum greglandrum deleted the dev/switch_to_fpgenerators branch May 16, 2023 02:38
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3 participants