Sign up for the event here: https://invtdu.to/_lde1x
This is the official advanced practice challenge for UmojaHack Africa 2023.
All enzymes are made of one or more chains of amino acids, which determine their structure, behaviour, and interactions with other enzymes and molecules. That means it should be possible to predict the protein’s function and behaviour given just the amino acid sequence.
A model able to perform this task would have many applications. In addition to enzymes from known organisms (which we have from studying their proteomes), there are vast numbers of metagenomic sequences - this is proteomic sequence data from environmental samples. Being able to quickly annotate them with function using this model (i.e. going beyond simple sequence similarity) would be indispensable. Models developed in the course of this challenge may contribute to furthering the understanding of the world around us.
The evaluation metric for this challenge is Accuracy. You must submit predicted labels for each SEQUENCE_ID.
Your submission should look like the following:
This is a learning competition. Aside from knowledge, there are no prizes for this competition.
You will receive 25 points for your first submission and 50 points for your first non-sample submission. You can read more about Zindi points here.
Competition closes on 16 March 2023.
Final submissions must be received by 11:59 PM GMT.
We reserve the right to update the contest timeline if necessary.
How to enroll in your first Zindi competition
How to create a team on Zindi
How to update your profile on Zindi
Teams and collaboration
You may participate in this competition as an individual or in a team of up to four people. When creating a team, the team must have a total submission count less than or equal to the maximum allowable submissions as of the formation date. A team will be allowed the maximum number of submissions for the competition, minus the highest number of submissions among team members at team formation.
Multiple accounts per user are not permitted, and neither is collaboration or membership across multiple teams. Individuals and their submissions originating from multiple accounts will be disqualified.
Code must not be shared privately outside of a team. Any code that is shared, must be made available to all competition participants through the platform. (i.e. on the discussion boards).
The Zindi user who sets up a team is the default Team Leader. The Team Leader can invite other data scientists to their team. Invited data scientists can accept or reject invitations. Until a second data scientist accepts an invitation to join a team, the data scientist who initiated a team remains an individual on the leaderboard. No additional members may be added to teams within the final 5 days of the competition or the last hour of a hackathon, unless otherwise stated in the competition rules
Datasets and packages
The solution must use publicly-available, open-source packages only. Your models should not use any of the metadata provided.
You may use only the datasets provided for this competition. Automated machine learning tools such as automl are not permitted.
If the challenge is a computer vision challenge, image metadata (Image size, aspect ratio, pixel count, etc) may not be used in your submission.
You may only use the data sets provided. External data is not allowed.
You may use pretrained models as long as they are openly available to everyone.
The data used in this competition is the sole property of Zindi and the competition host. You may not transmit, duplicate, publish, redistribute or otherwise provide or make available any competition data to any party not participating in the Competition (this includes uploading the data to any public site such as Kaggle or GitHub). You may upload, store and work with the data on any cloud platform such as Google Colab, AWS or similar, as long as 1) the data remains private and 2) doing so does not contravene Zindi’s rules of use.
You must notify Zindi immediately upon learning of any unauthorised transmission of or unauthorised access to the competition data, and work with Zindi to rectify any unauthorised transmission or access.
Your solution must not infringe the rights of any third party.
Submissions and winning
You may make a maximum of 10 submissions per day.
Note that to count, your submission must first pass processing. If your submission fails during the processing step, it will not be counted and not receive a score; nor will it count against your daily submission limit. If you encounter problems with your submission file, your best course of action is to ask for advice on the Competition’s discussion forum.
Note that there is no public/private leaderboard split for this challenge.
You acknowledge and agree that Zindi may, without any obligation to do so, remove or disqualify an individual, team, or account if Zindi believes that such individual, team, or account is in violation of these rules. Entry into this competition constitutes your acceptance of these official competition rules.
Zindi also reserves the right to disqualify you and/or your submissions from any competition if we believe that you violated the rules or violated the spirit of the competition or the platform in any other way. The disqualifications are irrespective of your position on the leaderboard and completely at the discretion of Zindi.