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Mixed count base batches #158

Merged
merged 8 commits into from
Nov 21, 2024
Merged

Mixed count base batches #158

merged 8 commits into from
Nov 21, 2024

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davidbenjamin
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@davidbenjamin davidbenjamin commented Nov 21, 2024

This changes the gated MLPs in the base model to be able to handle batches with disparate alt and ref counts. Since batches are now all random samples of data we can probably get away with larger batch sizes, increasing GPU use.

It will also enable greater variety of ref counts. Previously we have downsampled ref counts to exactly 5 or 10 reads; this is no longer necessary. That's most likely good for generalizability.

@davidbenjamin davidbenjamin merged commit dd74395 into master Nov 21, 2024
@davidbenjamin davidbenjamin deleted the db_mixed_count_base_batches branch November 21, 2024 04:03
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