Setup | Case study: authors & datasets | Challenge and solution | Areas of interest | Collaboration | Duplicate collection-author combinations | What is an 'author'? | Case study: using ontology to identify datasets | Session information

Installation and use | cxg() Provides a 'shiny' interface | Collections, datasets and files | Using dplyr to navigate data | facets() provides information on 'levels' present in specific columns | Filtering faceted columns | Publication and other external data | Visualizing data in cellxgene | File download and use | Next steps | API changes | Session info

Introduction | Access ProteinGym datasets through ExperimentHub. | Correlate DMS scores and AlphaMissense predictions | Benchmark AlphaMissense with other variant effect prediction models | Session information

Introduction | Discovery, retrieval and use | Working with Bioconductor | Genomic ranges | GRCh38 annotation resources | From Bioconductor to DuckDB | From DuckDB to Bioconductor | Finally | Session information

Data | Clustering | Generative classifier

Updating duckdb to 0.9.1 | Resource temporarily unavailable | Finally | Session information

Introduction | AlphaFold protein structure | Fast path | UniProt identifiers | Protein structure | Average pathogenicity | Coloring amino acids by position | Visualizing genomic tracks | Finally | Session information

Introduction & installation | Query and pivot | Select, filter and transform with j_query() | Array-of-objects to R data.frame with j_pivot() | NDJSON support | R objects as input | Patch | Applying a patch with j_patch_apply() | Difference between documents with j_patch_from() | Schema validation | Flatten and find | The JSON parser | Using jsonlite::fromJSON() | C++ library use in other packages | Session information

Introduction | Access ClinVar classifications with AlphaMissense predictions | Compare ClinVar and AlphaMissense | Session information

Introduction | General design principles | Data structure in Redis | Workflow | Manager | Submit a task to Redis | Receive a result from Redis | Worker | Receive a task from Redis | Send a result to Redis | Session information

Getting started | Use | Manager and workers from a single R session | Independently-managed workers | Session info