Python API#
The fasta_lake package, one page per module, rendered from the docstrings in the source. Start from the function map to see which module runs at which stage.
Use the complete function index for an alphabetical list within each workflow area, with links to exact definitions.
Workflow#
fasta_lake.run_configfasta_lake.configfasta_lake.provenancefasta_lake.helpersfasta_lake.hashingfasta_lake.gzip_iofasta_lake.searchfasta_lake.studyfasta_lake.quantificationfasta_lake.aggregatefasta_lake.downstreamfasta_lake.qc_plotsfasta_lake.qualityfasta_lake.capacityfasta_lake.chunkedfasta_lake.presetsfasta_lake.contaminantsfasta_lake.canonicalfasta_lake.canonical_comparison
Inference and selection#
fasta_lake.inference.basefasta_lake.inference.runnerfasta_lake.inference.strategiesfasta_lake.proteomics.groupingfasta_lake.proteomics.cascadefasta_lake.complexityfasta_lake.blosumfasta_lake.icsfasta_lake.refinefasta_lake.lake_builderfasta_lake.lake_mergefasta_lake.dianovofasta_lake.headers.fasta_iofasta_lake.headers.validation
Entrapment and diagnostics#
fasta_lake.entrapmentfasta_lake.entrapment_classesfasta_lake.entrapment_stagesfasta_lake.entrapment_workflowfasta_lake.benchmarkfasta_lake.diagnosefasta_lake.tune
Molecular evidence#
fasta_lake.multi_omics.sourcesfasta_lake.multi_omics.selectionfasta_lake.multi_omics.exactfasta_lake.multi_omics.evidence_gatefasta_lake.multi_omics.runnerfasta_lake.multi_omics.incrementsfasta_lake.multi_omics.complementarityfasta_lake.multi_omics.reproduce
Community and function#
fasta_lake.taxonomyfasta_lake.taxonomy_referencefasta_lake.annotationfasta_lake.embeddingsfasta_lake.networksfasta_lake.network_annotationsfasta_lake.community_plotsfasta_lake.metaproteomicsfasta_lake.explorationfasta_lake.downloadsfasta_lake.resources