Files in Capsule

Comprehensive Reproducibility Framework for R and Bioinformatics Analysis

NEWS.md README.md R/snapshot_comparison.R R/conda_support.R R/pipeline_hooks.R R/script_generation.R R/data_provenance.R R/reference_tracking.R R/docker_generation.R R/external_tools.R R/capture_session.R R/param_tracking.R R/package_tracking.R R/singularity_generation.R R/workflow.R inst/examples/example.R tests/testthat.R tests/testthat/test-large-files.R tests/testthat/test-system-hardware.R tests/testthat/test-external-tools.R tests/testthat/test-reference-tracking.R tests/testthat/test-pipeline-integration.R tests/testthat/test-basic.R tests/testthat/test-snapshot-comparison.R tests/testthat/test-snapshot.R tests/testthat/test-init.R tests/testthat/test-singularity.R tests/testthat/test-conda-support.R man/list_reference_sources.Rd man/generate_singularity.Rd man/track_params.Rd man/list_snapshots.Rd man/dot-save_tools_registry.Rd man/snapshot_workflow.Rd man/init_capsule.Rd man/track_external_tools.Rd man/dot-parse_deps.Rd man/dot-compare_packages.Rd man/restore_seed.Rd man/track_data.Rd man/dot-load_tools_registry.Rd man/dot-calculate_checksum.Rd man/get_param_history.Rd man/dot-load_reference_registry.Rd man/export_for_snakemake.Rd man/dot-generate_dockerignore.Rd man/dot-save_param_registry.Rd man/dot-compare_registries.Rd man/create_repro_report.Rd man/capture_system_libraries.Rd man/dot-create_config.Rd man/dot-build_dependency_graph.Rd man/dot-save_registry.Rd man/dot-get_fasta_stats.Rd man/compare_snapshots.Rd man/generate_docker.Rd man/dot-generate_docker_readme.Rd man/dot-save_conda_registry.Rd man/dot-save_seed_registry.Rd man/set_seed.Rd man/dot-extract_package_info.Rd man/snapshot_packages.Rd man/dot-get_tool_version.Rd man/export_for_nextflow.Rd man/generate_repro_script.Rd man/get_reference_info.Rd man/get_conda_env_info.Rd man/get_tool_versions.Rd man/capture_hardware.Rd man/get_seed_history.Rd man/dot-save_reference_registry.Rd man/track_reference_genome.Rd man/capture_environment.Rd man/capture_session.Rd man/create_renv_lockfile.Rd man/dot-generate_docker_compose.Rd man/export_for_cwl.Rd man/verify_data.Rd man/dot-format_size.Rd man/restore_conda_env.Rd man/get_data_lineage.Rd man/dot-generate_comparison_report.Rd man/dot-create_example_script.Rd man/dot-load_seed_registry.Rd man/dot-load_param_registry.Rd man/dot-create_gitignore.Rd man/track_conda_env.Rd man/dot-load_registry.Rd man/dot-load_conda_registry.Rd man/export_for_wdl.Rd man/dot-format_r_value.Rd man/dot-generate_dockerfile.Rd man/dot-get_tool_path.Rd