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params.config
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params.config
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params {
downloadRetries = 3
probeUpdateFreqMins = 15
fetchFreqMillis = 2000
allowedDownloadMethods = 'http ftp'
tertiaryWorkflow = 'None'
//teriaryWorkflow = 'scanpy-workflow'
islReferenceType = 'newest'
// cellAnalysisFields are all the fields that will be used in tertiary
// analysis. Right now this is limited to the field used for cell type
// markers, but will likely be extended in future. This is the selection of
// fields for which changes trigger tertiary re-analysis
//cellAnalysisFields = 'inferred cell type - ontology labels'
cellAnalysisFields = 'inferred cell type,inferred cell type - ontology labels,inferred cell type - authors labels'
// The specific field used for cell type analysis- should be part of
// cellAnalysisFields. The first of these that's found will be used
cellTypeField = 'authors cell type - ontology labels,authors cell type,inferred cell type - ontology labels,inferred cell type - authors labels'
// Biotypes and chromsomes for assignment of genes as mitochondrial
mitoChr = 'mt,mitochondrion_genome,mito,m,chrM,chrMt'
mitoBiotypes = 'mt_trna,mt_rrna,mt_trna_pseudogene,mt_dna'
}