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| nav: | |
| - index.md | |
| - Tutorials: | |
| - tutorials/index.md | |
| - Install Folding Studio: tutorials/installation.md | |
| - Run AlphaFold2 on a protein sequence: tutorials/single_folding_job_af2.md | |
| - Perform a Multiple Sequence Alignment (MSA) search: tutorials/msa_search.md | |
| - Preview - Run folding jobs with AlphaFold3-like models: tutorials/single_folding_job_af3.md | |
| - How-to guides: | |
| - how-to-guides/index.md | |
| - AlphaFold2/OpenFold: | |
| - Provide Input Data: how-to-guides/af2_openfold/provide_input_data.md | |
| - Launch a Folding Job using AlphaFold2: how-to-guides/af2_openfold/single_af2_job.md | |
| - Launch a Folding Job using OpenFold: how-to-guides/af2_openfold/single_openfold_job.md | |
| - Launch a Folding Job with custom parameters: how-to-guides/af2_openfold/set_af_folding_parameters.md | |
| - Launch a batch Folding Job from a configuration file: how-to-guides/af2_openfold/batch_job_from_configuration_file.md | |
| - Launch a batch Folding Job from a directory of fasta files: how-to-guides/af2_openfold/batch_job_from_directory.md | |
| - Check Job Status: how-to-guides/af2_openfold/fetch_folding_job_status.md | |
| - Download Job Logs: how-to-guides/af2_openfold/download_logs.md | |
| - Cancel a Folding Job submission: how-to-guides/af2_openfold/cancel_experiment.md | |
| - Retrieve Features from a Folding Job: how-to-guides/af2_openfold/get_experiment_features.md | |
| - Download results of a folding job: how-to-guides/af2_openfold/download_prediction_results.md | |
| - Advanced Algorithms: | |
| - Launch a Folding Job using MSA subsampling: how-to-guides/af2_openfold/advanced_algorithms/msa_subsampling_job.md | |
| - Launch a Folding Job using the Gap Trick for Folding Multimer Complexes: how-to-guides/af2_openfold/advanced_algorithms/gap_trick_job.md | |
| - Launch a Folding Job using an Initial Guess Structure in AlphaFold2: how-to-guides/af2_openfold/advanced_algorithms/initial_guess_af2.md | |
| - Launch a Folding Job applying Template Masking in Gap Trick Mode: how-to-guides/af2_openfold/advanced_algorithms/template_masking_job.md | |
| - Preview - Launch a folding job using SoloSeq model: how-to-guides/af2_openfold/soloseq_job.md | |
| - Preview - AlphaFold3-like: | |
| - Provide Input Data: how-to-guides/af3/provide_input_data.md | |
| - Launch a Single Job using Boltz-1: how-to-guides/af3/single_job_boltz.md | |
| - Launch a Single Job using Chai-1: how-to-guides/af3/single_job_chai.md | |
| - Launch a Single Job using Protenix: how-to-guides/af3/single_job_protenix.md | |
| - Launch a Single Job from a YAML file using Boltz-1: how-to-guides/af3/boltz_single_yaml_job.md | |
| - Launch a Batch Job from a directory: how-to-guides/af3/batch_job_from_directory.md | |
| - Launch a Single Job from a Protein Sequence: how-to-guides/af3/single_job_from_protein_sequence.md | |
| - Post-processing recipes: | |
| - Calculate Interface pLDDT and pAE: how-to-guides/other/pLDDT_pAE_calculation.md | |
| - Multiple Sequence Alignment Search: | |
| - Provide Input Data for MSA: how-to-guides/msa_search/provide_input_data.md | |
| - Launch an MSA Search with MMSeqs2: how-to-guides/msa_search/msa_search_mmseqs2.md | |
| - Launch an MSA Search ignoring cache: how-to-guides/msa_search/msa_no_cache.md | |
| - Check an MSA Job Status: how-to-guides/msa_search/fetch_msa_job_status.md | |
| - Download MSA Job Logs: how-to-guides/msa_search/download_msa_logs.md | |
| - Download Results of an MSA Search: how-to-guides/msa_search/download_msa_search_results.md | |
| - Explanation: | |
| - explanation/index.md | |
| - Supported models: explanation/supported_models.md | |
| - Advanced algorithms: explanation/advanced_algorithms.md | |
| - Reference: | |
| - CLI: reference/cli.md | |
| - Python Library: reference/python_lib_docs.md | |
| plugins: | |
| - swagger-ui-tag | |
| - search | |
| site_name: Folding Studio | |
| site_url: https://int-bio-foldingstudio-gcp.nw.r.appspot.com | |
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