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README.md
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---
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license: cc0-1.0
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configs:
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- config_name:
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data_files:
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- split: XL_all
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path: data/XL_all-*
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num_examples: 2934
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download_size: 1448868
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dataset_size: 14177087
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pretty_name: PRIDE Crosslinking Archive
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pretty_name: PRIDE Crosslinking Archive
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---
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license: cc0-1.0
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configs:
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- config_name: data
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data_files:
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- split: XL_all
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path: data/XL_all-*
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num_examples: 2934
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download_size: 1448868
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dataset_size: 14177087
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pretty_name: PRIDE Crosslinking Archive
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---
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# PRIDE Crosslinking Archive
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<!-- Provide a quick summary of the dataset. -->
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This dataset aggregates publicly available crosslinking mass spectrometry (XL-MS) datasets from the PRIDE repository.
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Each dataset is curated and categorized by crosslinking reagent a link type (inter-chain vs intra-chain). For intra-chain links where the protein can be mapped to a
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UniProt ID, each link is mapped onto the corresponding AlphaFold Database (AFDB) structure, and the Cα-Cα distance for the linked residue pair is reported.
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The result is a standardized resource for analyzing XL-MS constraints across reagents and for benchmarking/evaluating integrative modeling pipelines.
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## Quickstart Usage
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### Install HuggingFace Datasets package
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Each subset can be loaded into python using the Huggingface [datasets](https://huggingface.co/docs/datasets/index) library.
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First, from the command line install the `datasets` library
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$ pip install datasets
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Optionally set the cache directory, e.g.
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$ HF_HOME=${HOME}/.cache/huggingface/
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$ export HF_HOME
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then, from within python load the datasets library
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>>> import datasets
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### Load model datasets
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To load one of the `PRIDE_Crosslinking_Archive` datasets, use `datasets.load_dataset(...)`
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