AlphaFold: Difference between revisions
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Google provides "Colaboratories" (Colabs). A Colab "allows anybody to write and execute arbitrary python code through the browser, and is especially well suited to machine learning, data analysis and education"<ref name="colabfaq">[https://research.google.com/colaboratory/faq.html Collaboratory FAQ] at Google.</ref>. | Google provides "Colaboratories" (Colabs). A Colab "allows anybody to write and execute arbitrary python code through the browser, and is especially well suited to machine learning, data analysis and education"<ref name="colabfaq">[https://research.google.com/colaboratory/faq.html Collaboratory FAQ] at Google.</ref>. | ||
DeepMind has provided an [https://colab.research.google.com/github/deepmind/alphafold/blob/main/notebooks/AlphaFold.ipynb Alphafold Colab] that uses a "slightly simplified" version of AlphaFold version 2.0: "While accuracy will be near-identical to the full AlphaFold system on many targets, a small fraction have a large drop in accuracy due to the smaller MSA and lack of templates.". The AlphaFold Colab is '''free to use'''. The code is executed in a virtual machine private to your account, and data are stored on Google Drive. Nothing is installed on your computer; "everything happens in the cloud on Google Colab"<ref name="alphafoldcolab">[https://colab.research.google.com/github/deepmind/alphafold/blob/main/notebooks/AlphaFold.ipynb Alphafold Colab].</ref> | DeepMind has provided an [https://colab.research.google.com/github/deepmind/alphafold/blob/main/notebooks/AlphaFold.ipynb Alphafold Colab] that uses a "slightly simplified" version of AlphaFold version 2.0: "While accuracy will be near-identical to the full AlphaFold system on many targets, a small fraction have a large drop in accuracy due to the smaller MSA and lack of templates.". The AlphaFold Colab is '''free to use'''. The code is executed in a virtual machine private to your account, and data are stored on Google Drive. Nothing is installed on your computer; "everything happens in the cloud on Google Colab"<ref name="alphafoldcolab">[https://colab.research.google.com/github/deepmind/alphafold/blob/main/notebooks/AlphaFold.ipynb Alphafold Colab].</ref> See [[How to predict structures with AlphaFold]]. | ||
For those unfamiliar with Colabs, the user interface may look unfamiliar, but the instructions are clear and straightforward to use. The mentions of "Runtime -> Run after" refer to the Runtime pull-down menu at the very top of the page. Getting a result may take several hours. | For those unfamiliar with Colabs, the user interface may look unfamiliar, but the instructions are clear and straightforward to use. The mentions of "Runtime -> Run after" refer to the Runtime pull-down menu at the very top of the page. Getting a result may take several hours. | ||