5c908686bc3ff2eef3579191eb00b337 *DESCRIPTION
9cbc9b30a6546d9f43068a2410fa00fb *NAMESPACE
c2483bd880799efded2a476a9b390bc6 *NEWS.md
9e4c2c99a2fcbe06c2050ed148e1af40 *R/ploidy_est.R
fc0338863b40c3a8189a85d29b69f88b *R/plots_standardization.R
7ea3c43da240b5670eb50eaf1276835b *R/prepare.R
a87d1b5a957b09409ef507077fa918d9 *R/simulate_inputs.R
6c59983464faf8edc0261f1a287defa0 *R/standardization.R
d22a8e3124b2fda2cb838fcd2237419e *R/utils.R
574a6c92534a7ad44dfa2ce7b1a6b370 *R/vcf_sanity_check.R
c1ca9d1ca7520d604e915f9352e8e9d0 *R/zzz.R
76e123f5dcc8dee07678412adc0a2a84 *build/partial.rdb
eb6b2e82dc3c19dc771160d25e359e8c *build/vignette.rds
be56e17ff503f25881df7cf36b704850 *inst/AxiomGT1_summary.txt
80f2ebbabb6b40436bc8aa69d94b4006 *inst/CITATION
fba3e1d5ae401c7b5ed7d8a8a7389e0a *inst/WORDLIST
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2c108af8dad7c05376549d59feea6da5 *inst/app/www/BreedingInsight.png
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54fbab896bbc64f6a0c08b4d936d0d3c *inst/app/www/BreedingInsight_Secondary_RGBColor_400px.png
cb7fa35931205e182bcf95d33195541c *inst/app/www/IFAS.jpg
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07f44117d15b739f416061a36eeebcef *inst/doc/Qploidy.R
3a20f0b7eae2fd4f85220077ef95d02f *inst/doc/Qploidy.Rmd
aeecf6bbde919be8924a92a649cfa048 *inst/doc/Qploidy.html
c6bf686ffb813e8f2bae9a4759c699b0 *inst/help_files/Qploidy_cite.Rmd
0fa43b55b6c07b842fc509c88b9b85c0 *inst/help_files/Qploidy_par.Rmd
c8bb779ed5b9198d9bf44e355b135649 *inst/help_files/Qploidy_res.Rmd
7e920e1f0b8db31afa103c582734672f *inst/logo.svg
6d1d0349749a6ab06dbffe5e7332eddc *inst/vcf_example_simulated.vcf.gz
4e4573f3e9c90dbca4fa9c3b1abd3c20 *man/all_resolutions_plots.Rd
a6b36c30c0467731f24eb1214402417b *man/area_estimate_ploidy.Rd
dec3359177643197d1f22139b109f13d *man/clean_summary.Rd
0cf3b5a78338a54d96062fe8f3670c21 *man/find_header_line.Rd
d5315b1190bfb2d1c967bd0220372f00 *man/get_R_theta.Rd
d6711503491dc0fe95f01049cbd80334 *man/get_aneuploids.Rd
3b6be6c600c412413f1e94bd19e82812 *man/get_baf.Rd
3f24dabcd029eef9b9986fbd196eddc1 *man/get_baf_par.Rd
7778d0654736ac46bc79626bd8ba5e90 *man/get_centers.Rd
c31df0d9bcd1e80ba35e0efd331a1f67 *man/get_zscore.Rd
5106cd17fcbb246f720faa20f206e995 *man/is_compressed_file.Rd
0b8c2fba89880041dc5f9a5fbd06fa1f *man/merge_arms_format.Rd
eff351a625e70045492224533719842e *man/mode.Rd
e10cb460b0207a92d32c3a4e477cfad7 *man/pascalTriangle.Rd
5c20b9dbeefd4d39fb8fe7da57e16114 *man/plot_baf.Rd
911def35d5a14ba434dd5e93863d0e58 *man/plot_baf_hist.Rd
f723b35008603f06dc9d6e34535ae258 *man/plot_baf_with_ploidy_guides.Rd
8181bafc4e7dd7e63ca26e9b9d25dea9 *man/plot_qploidy_standardization.Rd
90ce711fc3a54321523d6aa7c7e1a8a6 *man/plot_xy_with_ploidy_guides.Rd
75c59b211292ce0be71109202e6ba8ce *man/print.qploidy_area_ploidy_estimation.Rd
6537a79b6f1b4a54585f925e85c5820d *man/print.qploidy_standardization.Rd
b9a58a460ebda6a074f39836629695f0 *man/qploidy_read_vcf.Rd
363ab2750c8713b6363fe25261983497 *man/read_axiom.Rd
b916c85bf24dfa002f528c7d9afd5aa5 *man/read_illumina_array.Rd
5346f266b50d6fe13b8c715aaed4f3ae *man/read_qploidy_standardization.Rd
a6a59fba5370f8692e7bd36b42a3b2c2 *man/rm_outlier.Rd
71e69333ef38bf02dfd7a0a9f68ef844 *man/simulate_axiom_summary.Rd
385690192b7e769b99906f84f6e2b25e *man/simulate_illumina_file.Rd
70a0f0292550835adb2d19c3ccb1232a *man/simulate_standardization_input.Rd
12b3050ca68c070e95d4837be36ee433 *man/simulate_vcf.Rd
a53ce4ee59af82eb69a4a275a1b4cba3 *man/standardize.Rd
a5419f369fe201b16ee04d38a6c588b4 *man/summary_to_fitpoly.Rd
882835f642e19f41ca1d401c8b5403be *man/updog_centers.Rd
74a8779eca75daad2a5019e3a87df3ac *man/vcf_sanity_check.Rd
83351eb12b407626ac6066cd714d2292 *man/write_qploidy_standardization.Rd
49382fb17da7c4a51f07bd224c52a5f3 *tests/testthat.R
f3b5684b6fd9568d682568c670073e13 *tests/testthat/test-ploidy_est.R
6b135d3844cad92a195a4b877fd3c8ce *tests/testthat/test-prepare.R
a870e54fcbf314e03e40c42086cdac89 *tests/testthat/test-standardization.R
3a20f0b7eae2fd4f85220077ef95d02f *vignettes/Qploidy.Rmd
a981a3c36aa535a3a1ab78ddca2af5f6 *vignettes/fig1.jpg
bc45650dc22f87862568470617c08801 *vignettes/fig2.jpg
e3b20369ec170c2c0bba74f45343e1c7 *vignettes/fig3.jpg
622b4271c27f76b74028266ad8b66430 *vignettes/fig4.jpg
98ac341e3678626cf9216e7d870cc946 *vignettes/fig5.jpg
624d5cb8ed3f0069b9b7336587a8a065 *vignettes/fig6.jpg
77c945c546d21e0b5c42a7d067b7ea78 *vignettes/fig7.jpg
