Files in Illumina/happyR
Load hap.py results into R
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
R/generics.R
R/getters.R
R/input.R
R/types.R
README.Rmd
README.md
docs/LICENSE-text.html
docs/articles/Precision-recall_curves.html
docs/articles/Precision-recall_curves_files/figure-html/all_pr-1.png
docs/articles/Precision-recall_curves_files/figure-html/del_length-1.png
docs/articles/Precision-recall_curves_files/figure-html/sel_pr-1.png
docs/articles/Precision-recall_curves_files/figure-html/snv_boundary-1.png
docs/articles/index.html
docs/articles/loading_data.html
docs/articles/quick_start.html
docs/articles/quick_start_files/figure-html/all_pr-1.png
docs/articles/quick_start_files/figure-html/indel_subtypes-1.png
docs/articles/quick_start_files/figure-html/sel_pr-1.png
docs/articles/stratified_counts.html
docs/articles/stratified_counts_files/figure-html/unnamed-chunk-10-1.png
docs/articles/stratified_counts_files/figure-html/unnamed-chunk-11-1.png
docs/articles/stratified_counts_files/figure-html/unnamed-chunk-12-1.png
docs/articles/stratified_counts_files/figure-html/unnamed-chunk-13-1.png
docs/articles/stratified_counts_files/figure-html/unnamed-chunk-14-1.png
docs/articles/stratified_counts_files/figure-html/unnamed-chunk-7-1.png
docs/articles/stratified_counts_files/figure-html/unnamed-chunk-9-1.png
docs/authors.html
docs/docsearch.css
docs/docsearch.js
docs/examples/README-usage-1.png
docs/index.html
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/c.happy_result.html
docs/reference/extract_results.html
docs/reference/index.html
docs/reference/pr_data.html
docs/reference/print.happy_result.html
docs/reference/read_happy.html
docs/reference/read_samplesheet.html
docs/reference/read_samplesheet_.html
examples/README-usage-1.png
happyR.Rproj
inst/bash/run_happy.sh
inst/extdata/NA12878-I30_S1.extended.csv
inst/extdata/NA12878-I30_S1.roc.Locations.INDEL.PASS.csv.gz
inst/extdata/NA12878-I30_S1.roc.Locations.INDEL.SEL.csv.gz
inst/extdata/NA12878-I30_S1.roc.Locations.INDEL.csv.gz
inst/extdata/NA12878-I30_S1.roc.all.csv.gz
inst/extdata/NA12878-I30_S1.summary.csv
inst/extdata/NA12878-I33_S1.extended.csv
inst/extdata/NA12878-I33_S1.roc.Locations.INDEL.PASS.csv.gz
inst/extdata/NA12878-I33_S1.roc.Locations.INDEL.SEL.csv.gz
inst/extdata/NA12878-I33_S1.roc.Locations.INDEL.csv.gz
inst/extdata/NA12878-I33_S1.roc.all.csv.gz
inst/extdata/NA12878-I33_S1.summary.csv
inst/extdata/NA12878-R1_S1.extended.csv
inst/extdata/NA12878-R1_S1.roc.Locations.INDEL.PASS.csv.gz
inst/extdata/NA12878-R1_S1.roc.Locations.INDEL.SEL.csv.gz
inst/extdata/NA12878-R1_S1.roc.Locations.INDEL.csv.gz
inst/extdata/NA12878-R1_S1.roc.all.csv.gz
inst/extdata/NA12878-R1_S1.summary.csv
inst/extdata/NA12878-R2_S1.extended.csv
inst/extdata/NA12878-R2_S1.roc.Locations.INDEL.PASS.csv.gz
inst/extdata/NA12878-R2_S1.roc.Locations.INDEL.SEL.csv.gz
inst/extdata/NA12878-R2_S1.roc.Locations.INDEL.csv.gz
inst/extdata/NA12878-R2_S1.roc.all.csv.gz
inst/extdata/NA12878-R2_S1.summary.csv
inst/extdata/PG_Conf_chr21.bed.gz
inst/extdata/PG_Conf_chr21.bed.gz.tbi
inst/extdata/PG_NA12878_chr21.vcf.gz
inst/extdata/PG_NA12878_chr21.vcf.gz.tbi
inst/extdata/happy_demo.extended.csv
inst/extdata/happy_demo.roc.Locations.INDEL.PASS.csv.gz
inst/extdata/happy_demo.roc.Locations.INDEL.SEL.csv.gz
inst/extdata/happy_demo.roc.Locations.INDEL.csv.gz
inst/extdata/happy_demo.roc.Locations.SNP.PASS.csv.gz
inst/extdata/happy_demo.roc.Locations.SNP.SEL.csv.gz
inst/extdata/happy_demo.roc.Locations.SNP.csv.gz
inst/extdata/happy_demo.roc.all.csv.gz
inst/extdata/happy_demo.runinfo.json
inst/extdata/happy_demo.summary.csv
man/c.happy_result.Rd
man/extract_results.Rd
man/pr_data.Rd
man/print.happy_result.Rd
man/read_happy.Rd
man/read_samplesheet.Rd
man/read_samplesheet_.Rd
tests/testthat.R
tests/testthat/test_combine.R
tests/testthat/test_feedback.R
tests/testthat/test_getters.R
tests/testthat/test_input.R
tests/testthat/test_lazy.R
tests/testthat/test_output.R
vignettes/Precision-recall_curves.R
vignettes/Precision-recall_curves.Rmd
vignettes/demo_data.Rds
vignettes/demo_hdi.csv
vignettes/loading_data.R
vignettes/loading_data.Rmd
vignettes/negative-binomial.stan
vignettes/sim_data.csv
vignettes/sim_hdi.csv
vignettes/stratified_counts.R
vignettes/stratified_counts.Rmd
vignettes/stratified_counts_util.R
