Roxygenize

Boehringer-Ingelheim · Mar 7, 2024 · eb2328a · eb2328a
1 parent 6c55cf7
commit eb2328a
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Showing 8 changed files with 117 additions and 7 deletions.
diff --git a/NAMESPACE b/NAMESPACE
@@ -7,6 +7,7 @@ export(read_personalis_hla_reports)
 export(read_personalis_msi_reports)
 export(read_personalis_small_variant_reports)
 export(read_personalis_tcr_reports)
+export(read_personalis_vcf_files)
 importFrom(MultiAssayExperiment,MultiAssayExperiment)
 importFrom(SummarizedExperiment,SummarizedExperiment)
 importFrom(dplyr,across)
@@ -15,6 +16,7 @@ importFrom(dplyr,bind_rows)
 importFrom(dplyr,cur_column)
 importFrom(dplyr,distinct)
 importFrom(dplyr,if_else)
+importFrom(dplyr,left_join)
 importFrom(dplyr,mutate)
 importFrom(dplyr,select)
 importFrom(purrr,keep)
@@ -25,6 +27,10 @@ importFrom(rvest,html_nodes)
 importFrom(rvest,html_table)
 importFrom(rvest,html_text)
 importFrom(rvest,read_html)
+importFrom(stringr,str_split_i)
+importFrom(stringr,str_to_title)
 importFrom(tibble,tibble)
 importFrom(tidyr,pivot_longer)
 importFrom(tidyr,pivot_wider)
+importFrom(vcfR,read.vcfR)
+importFrom(vcfR,vcfR2tidy)
diff --git a/man/parse_vcf_to_df.Rd b/man/parse_vcf_to_df.Rd
diff --git a/man/read_personalis.Rd b/man/read_personalis.Rd
diff --git a/man/read_personalis_small_variant_report_sample.Rd b/man/read_personalis_small_variant_report_sample.Rd
diff --git a/man/read_personalis_small_variant_reports.Rd b/man/read_personalis_small_variant_reports.Rd
diff --git a/man/read_personalis_variant_calling_summary_statistics.Rd b/man/read_personalis_variant_calling_summary_statistics.Rd
diff --git a/man/read_personalis_vcf_files.Rd b/man/read_personalis_vcf_files.Rd
diff --git a/man/read_personalis_vcf_files_sample.Rd b/man/read_personalis_vcf_files_sample.Rd