Files in alkodsi/ctDNAtools
Analyze Circulating Tumor DNA Sequencing Data

.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
LICENSE.md
NAMESPACE
R/analyze_fragmentation.R R/bin_fragment_size.R R/create_background_panel.R R/create_background_panel_instance.R R/create_black_list.R R/data.R R/extract_trinucleotide_context.R R/filter_mutations.R R/get_background_rate.R R/get_bam_SM.R R/get_bam_chr.R R/get_fragment_size.R R/get_hist_bins.R R/get_mutation_read_names.R R/get_mutations_fragment_size.R R/get_mutations_read_counts.R R/get_mutations_read_names.R R/get_read_counts.R R/merge_mutations_in_phase.R R/positivity_test.R R/simulator.R R/summarize_fragment_size.R R/test_ctDNA.R R/vcf_to_mutations_df.R R/verify_tag.R README.md
_pkgdown.yml
codecov.yml
cran-comments.md
data/mutations.rda
data/targets.rda
inst/CITATION
inst/extdata/N1.bai
inst/extdata/N1.bam
inst/extdata/N2.bai
inst/extdata/N2.bam
inst/extdata/N3.bai
inst/extdata/N3.bam
inst/extdata/T1.bai
inst/extdata/T1.bam
inst/extdata/T2.bai
inst/extdata/T2.bam
man/analyze_fragmentation.Rd man/bin_fragment_size.Rd man/compare_simulated_observed.Rd man/create_background_panel.Rd man/create_background_panel_instance.Rd man/create_black_list.Rd man/extract_trinucleotide_context.Rd
man/figures/ctDNAtools_overview.png
man/figures/logo.png
man/filter_mutations.Rd man/get_background_rate.Rd man/get_bam_SM.Rd man/get_bam_chr.Rd man/get_fragment_size.Rd man/get_hist_bins.Rd man/get_mutation_read_names.Rd man/get_mutations_fragment_size.Rd man/get_mutations_read_counts.Rd man/get_mutations_read_names.Rd man/get_read_counts.Rd man/merge_mutations_in_phase.Rd man/mutations.Rd man/positivity_test.Rd man/simulator.Rd man/summarize_fragment_size.Rd man/targets.Rd man/test_ctDNA.Rd man/vcf_to_mutations_df.Rd man/verify_tag.Rd tests/testthat.R tests/testthat/test-ctDNAtest.R tests/testthat/test-fragment_size.R
vignettes/.gitignore
vignettes/bibliography.bib
vignettes/ctDNAtools.Rmd
alkodsi/ctDNAtools documentation built on Feb. 26, 2020, 7:02 a.m.