|
cosmic_census()
|
load COSMIC gene census |
|
extract_polyphen()
|
Split a polyphen column into text and number |
|
extract_sift()
|
Split a SIFT column into text and number |
|
get_janeway_alterations()
|
load Janeway alterations |
|
get_stjude_snvs()
|
get St. Jude SNVs |
|
lcc_genes()
|
Targeted whole gene (LCC) capture gene symbols |
|
shatterseq_results()
|
Load ShatterSeq results |
|
sleepingbeauty
|
Sleeping beauty gene list from Moriarty et al. |
|
target_cnv_calls()
|
CNV calls, corrected for purity |
|
target_dna_qc()
|
DNA sequencing QC metrics |
|
target_gistic_se()
|
load TARGET GISTIC data as summarized experiment |
|
target_huex_se()
|
Load TARGET huex data as SummarizedExperiment |
|
target_load_clinical()
|
load TARGET osteosarcoma data |
|
target_methylation_se()
|
Load TARGET methylation data as SummarizedExperiment |
|
target_mirna_se()
|
Load TARGET miRNA data as SummarizedExperiment |
|
target_purity()
|
Load Purity and Ploidy estimates |
|
target_shiny_copy_number_survival()
|
start copy-number/survival shiny app |
|
target_usi_to_samplename()
|
convert TARGET USI to samplename |
|
variant_calls()
|
load stacked, filtered mutect calls |