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OpenDAS
OpenFold
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7e2b311f
Unverified
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7e2b311f
authored
Apr 20, 2022
by
Gustaf Ahdritz
Committed by
GitHub
Apr 20, 2022
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Add features to README
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@@ -15,12 +15,20 @@ cases where the *Nature* paper differs from the source, we always defer to the
...
@@ -15,12 +15,20 @@ cases where the *Nature* paper differs from the source, we always defer to the
latter.
latter.
OpenFold is built to support inference with AlphaFold's original JAX weights.
OpenFold is built to support inference with AlphaFold's original JAX weights.
Try it out with our
[
Colab notebook
](
https://colab.research.google.com/github/aqlaboratory/openfold/blob/main/notebooks/OpenFold.ipynb
)
.
It's also faster than the official code on GPU. Try it out for yourself with
our
[
Colab notebook
](
https://colab.research.google.com/github/aqlaboratory/openfold/blob/main/notebooks/OpenFold.ipynb
)
.
Unlike DeepMind's public code, OpenFold is also trainable. It can be trained
Unlike DeepMind's public code, OpenFold is also trainable. It can be trained
with
[
DeepSpeed
](
https://github.com/microsoft/deepspeed
)
and with either
`fp16`
with
[
DeepSpeed
](
https://github.com/microsoft/deepspeed
)
and with either
`fp16`
or
`bfloat16`
half-precision.
or
`bfloat16`
half-precision.
OpenFold is equipped with an implementation of low-memory attention
(Rabe & Staats 2021), which makes possible inference on extremely long chains.
We also make available efficient scripts for generating alignments. We've
used them to generate millions of alignments that will be released alongside
original OpenFold weights, trained from scratch using our code (more on that soon).
## Installation (Linux)
## Installation (Linux)
All Python dependencies are specified in
`environment.yml`
. For producing sequence
All Python dependencies are specified in
`environment.yml`
. For producing sequence
...
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