tests/generate_test_data/generate_tiny_cesa.R
In Townsend-Lab-Yale/cancereffectsizeR: Calculate Cancer Effect Size
prev_dir = setwd(system.file("tests/test_data/", package = "cancereffectsizeR"))
# 2 SNVs will trigger a warning for being reference mismatches
maf = preload_maf('tiny.hg38.maf.txt', refset = 'ces.refset.hg38')
fwrite(maf, 'tiny_preloaded.txt', sep = "\t", na = 'NA')
tiny_ak = load_maf(cesa = CESAnalysis(refset ="ces.refset.hg38"), maf = maf)
save_cesa(tiny_ak, "tiny_hg38_maf_loaded.rds")
setwd(prev_dir)
Townsend-Lab-Yale/cancereffectsizeR documentation built on Aug. 25, 2024, 10:21 a.m.
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prev_dir = setwd(system.file("tests/test_data/", package = "cancereffectsizeR"))
# 2 SNVs will trigger a warning for being reference mismatches
maf = preload_maf('tiny.hg38.maf.txt', refset = 'ces.refset.hg38')
fwrite(maf, 'tiny_preloaded.txt', sep = "\t", na = 'NA')
tiny_ak = load_maf(cesa = CESAnalysis(refset ="ces.refset.hg38"), maf = maf)
save_cesa(tiny_ak, "tiny_hg38_maf_loaded.rds")
setwd(prev_dir)
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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