inst/README.md

In shbrief/GenomicSuperSignaturePaper: Reproduce GenomicSuperSignature paper

inst/extdata

This directory will serve as a placefolder for downloadable RAVmodels, which are stored in GCP (gs://genomic_super_signature) and readily accessible through wget or GenomicSuperSignature::getModel function.

• aggregated_metadata.json

• MeSH_terms_1399refinebio.rds : MeSH terms assigned to 1,399 studies, which is TRUE in RAVmodel_1399 column of studyMeta.csv file from GenomicSuperSignature package link.

• RAVmodel_C2.rds

• RAVmodel_PLIERpriors.rds
• source_name_annotated.tsv
• sra_to_mesh-000000000000.json
• SupTable3_RAVmodels_Instruction.R
• SupTable3_RAVmodels.csv
• topGenes_13934.rds
• wallabe4ToBucket.tsv

shbrief/GenomicSuperSignaturePaper documentation built on Aug. 2, 2022, 2:04 p.m.