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run the download script too
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sjspielman committed Oct 15, 2024
1 parent 7dffd0b commit 6d9cf4c
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1 change: 1 addition & 0 deletions analyses/cell-type-wilms-tumor-06/00_run_workflow.R
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Expand Up @@ -35,6 +35,7 @@ metadata <- read.table(sample_metadata_file, sep = "\t", header = TRUE)
module_base <- file.path(root_dir, "analyses", "cell-type-wilms-tumor-06")

# Download and create the references for label transfer, and download the homolog file for ID mapping ----------
system(command = glue::glue("Rscript ", file.path(module_base, "scripts", "download-reference-files.R")))
system(command = glue::glue("Rscript ", file.path(module_base, "scripts", "prepare-fetal-references.R")))

# We build the gene position file reference for infercnv ------------------------
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