Files in seandavi/TargetOsteoAnalysis
Access Open-access TARGET Osteosarcoma Data
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/clinical_data.R
R/copy_number_shiny.R
R/cosmic_census.R
R/dna_qc_metrics.R
R/get_janeway_alterations.R
R/get_stjude_snvs.R
R/gistic_data.R
R/huex_data.R
R/lcc_gene_list.R
R/maf_col_utils.R
R/methylation_data.R
R/mirna_data.R
R/purity_ploidy.R
R/shatterseq_results.R
R/sleepingbeautydata.R
R/target_cnv_purity_corrected_calls.R
R/variant_calls.R
README.md
TargetOsteoAnalysis.Rproj
_pkgdown.yml
data/sleepingbeauty.RData
inst/.DS_Store
inst/doc/copy_number_survival.R
inst/doc/copy_number_survival.Rmd
inst/doc/copy_number_survival.html
inst/extdata/.DS_Store
inst/extdata/All_ssGSEA_CTA4surv.txt.gz
inst/extdata/CosmicCensus.csv.gz
inst/extdata/OS_Val_Roche_Purecn.txt.gz
inst/extdata/OS_dis_pureCN_all.txt
inst/extdata/OS_dis_pureCN_all.txt.gz
inst/extdata/TARGET_OS_Discovery_ClinicalData_20170525.xlsx
inst/extdata/TARGET_OS_Discovery_ClinicalData_20180618.xlsx
inst/extdata/TARGET_OS_Validation_ClinicalData_20180107.xlsx
inst/extdata/TargetOsteoDiscWGS.shatterseek.chromSummary.non-filtered.tsv.gz
inst/extdata/TargetOsteoDiscovery.LCC.summary.pureCN.cns.calls.gz
inst/extdata/TargetOsteoValidation.LCC.summary.pureCN.cns.calls.gz
inst/extdata/all_data_by_genes.txt.bz2
inst/extdata/discovery_qcMetrics.txt.gz
inst/extdata/summary.TargetOsteo.mutect.GATKPlus.sampleInfo.geneLists.tab.gz
inst/extdata/summary.pureCN.cns.calls.tsv.gz
inst/extdata/valid_exome_qcMetrics.txt.gz
inst/extdata/valid_lcc_qcMetrics.txt.gz
inst/extdata/valid_roche.pureCN.cns.calls.gz
inst/extdata/valid_roche_qcMetrics.txt.gz
inst/scripts/.gitignore
inst/scripts/get_sleeping_beauty_data.R
inst/scripts/small_variants.Rmd
inst/scripts/small_variants.docx
inst/scripts/small_variants.html
man/cosmic_census.Rd
man/extract_polyphen.Rd
man/extract_sift.Rd
man/get_janeway_alterations.Rd
man/get_stjude_snvs.Rd
man/lcc_genes.Rd
man/shatterseq_results.Rd
man/sleepingbeauty.Rd
man/target_cnv_calls.Rd
man/target_dna_qc.Rd
man/target_gistic_se.Rd
man/target_huex_se.Rd
man/target_load_clinical.Rd
man/target_methylation_se.Rd
man/target_mirna_se.Rd
man/target_purity.Rd
man/target_shiny_copy_number_survival.Rd
man/target_usi_to_samplename.Rd
man/variant_calls.Rd
vignettes/.gitignore
vignettes/lcc_variants.Rmd
vignettes/multivariate_survival.Rmd
vignettes/references.bib
vignettes/shatterseq.Rmd
