DeepChem Minutes 5/19/2022

DeepChem Minutes

India/Asia/Pacific Call

Date: May 19th, 2022

Attendees: Bharath, Ashish,


Bharath has been busy this last week and has only worked on a couple of student calls.

Ashish has been going through the datasets from recursion and PathAI’s paper and github. He’s also been looking at the BBBC data collection as a focus for a first tutorial on microscopy.

Americas/Europe/Africa/Middle East

Date: May 20th, 2022

Attendees: Bharath, Peter, Arun, Stanley, Abhishek


Bharath gave the same update as at the last call.

Arun worked on a couple of minor improvements and put up a PR on the same: #2909.

There was a general discussion on GSoC projects, the list of selected candidates and sourcing external funding for other candidates. Ideas on organizing regular office hours for GSoC students during the project timeline were also put up.

DeepChem Bioinformatics Call

Date: May 23rd, 2022

Attendees: Bharath, Tony, Prashant, Ashish, Stanley,


Bharath has put up a deepchem tutorial wishlist ( and talked about that list.

Tony began working with Shai on his GSoC project on a Pytorch Ferminet implementation. His first PR will be a Paulinet (Deep QMC) tutorial and will begin writing some of the documentation/pseudocode for his Ferminet implementation. He would also like to help mentor with Paulina (+Stanley) on her bioinformatics project.

Ashish mentioned this resource for learning ml when it came up in the call
Andrew ng has announced a new version of his popular coursera course
Ashish is working on a tutorial for cell counting.

Paulina finished writing the citations for all the DeepChem tutorials. On the scVI-tools front, she read the paper and started a scVI-tools tutorial. She will meet with Galen this week. Bharath mentioned Dr. Hani Goodarzi and meeting with him to learn how they are using scVI-tools. Stanley and her will also be chatting about protein transformers this week. Paulina learned a lot about transformers and the NLP field historical context this week.

Prashant has been doing ml course by Andrew NG.

Paulina presented her PR for review

Stanley mentioned that he was working with molpal for transformers.

Ashish discussed and how to adapt into a tutorial.

Joining the DeepChem Developer Calls

As a quick reminder to anyone reading along, the DeepChem developer calls are open to the public! If you’re interested in attending either or both of the calls, please send an email to, where X=bharath, Y=ramsundar.