Files in popopo19/excerno
Fillter out somatic mutations generated by the Formalin-Fixed Paraffin-Embedded (FFPE) tissue preservation technique from cancer tissue
DESCRIPTION
NAMESPACE
R/classify_simluated_samples.R
R/create_gr_from_sample.R
R/create_signature_sample_vector.R
R/excerno_utils.R
R/excerno_vcf.R
R/extract_all_prob.R
R/find_signature_name.R
R/format_mutation.R
R/get_classification.R
R/get_mutational_vector.R
R/signature_cosine_similarity.R
R/write_classification_to_vcf.R
R/write_grange_to_vcf.R
README.md
excerno.Rproj
inst/extdata/SIMULATED_SAMPLE_SBS4_1.vcf
inst/extdata/SIMULATED_SAMPLE_SBS4_2.vcf
inst/extdata/SIMULATED_SAMPLE_SBS4_3.vcf
inst/extdata/SIMULATED_SAMPLE_SBS4_4.vcf
inst/img/method.png
inst/utils/ffpe.signature.txt
inst/utils/mut_sig.order.txt
inst/utils/vcf-template.vcf
man/classify_simulated_samples.Rd
man/create_gr_from_sample.Rd
man/create_signature_sample_vector.Rd
man/excerno_vcf.Rd
man/extract_all_prob.Rd
man/find_signature_name.Rd
man/format_mutation.Rd
man/get_classification.Rd
man/get_ffpe_signature.Rd
man/get_mutation_types.Rd
man/get_mutational_vector.Rd
man/signature_cosine_similarity.Rd
man/write_classification_to_vcf.Rd
man/write_grange_to_vcf.Rd
tests/testthat.R
tests/testthat/test-classify_simulated_samples.R
tests/testthat/test-create_gr_from_sample.R
tests/testthat/test-create_signature_sample_vector.R
tests/testthat/test-excerno_vcf.R
tests/testthat/test-extract_all_prob.R
tests/testthat/test-find_signature_name.R
tests/testthat/test-format_mutation.R
tests/testthat/test-get_classification.R
tests/testthat/test-get_mutational_vector.R
tests/testthat/test-signature_cosine_similarity.R
tests/testthat/test-write_classification_to_vcf.R
tests/testthat/test-write_grange_to_vcf.R
vignettes/.gitignore
vignettes/excerno-intro.Rmd
vignettes/excerno-intro.md
