3.20. genbank¶

3.20.1. Inputs¶

genbank.annot.reference_feature_table
Array[File]+ — Default: None
tbl; feature table corresponding to each chromosome in the alignment

genbank.assemblies_fasta
Array[File]+ — Default: None
???

genbank.prep_genbank.authors_sbt
File — Default: None
???

genbank.prep_genbank.biosampleMap
File — Default: None
???

genbank.prep_genbank.comment
String — Default: None
???

genbank.prep_genbank.genbankSourceTable
File — Default: None
???

genbank.prep_genbank.organism
String — Default: None
???

genbank.prep_genbank.sequencingTech
String — Default: None
???

genbank.reference_fasta
File — Default: None
???

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genbank.annot.docker
String — Default: "quay.io/broadinstitute/viral-phylo"
???

genbank.annot.machine_mem_gb
Int? — Default: None
???

genbank.mafft.docker
String — Default: "quay.io/broadinstitute/viral-phylo"
???

genbank.mafft.fasta_basename
String — Default: basename(reference_fasta,'.fasta')
???

genbank.mafft.machine_mem_gb
Int? — Default: None
???

genbank.mafft.mafft_ep
Float? — Default: None
???

genbank.mafft.mafft_gapOpeningPenalty
Float? — Default: None
???

genbank.mafft.mafft_maxIters
Int? — Default: None
???

genbank.prep_genbank.coverage_table
File? — Default: None
???

genbank.prep_genbank.docker
String — Default: "quay.io/broadinstitute/viral-phylo"
???

genbank.prep_genbank.machine_mem_gb
Int? — Default: None
???

genbank.prep_genbank.molType
String — Default: "cRNA"
???

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