Files in Snitkin-Lab-Umich/snitkitr
Functions Commonly Used in the Snitkin Lab
.Rbuildignore
.Rhistory
.gitignore
DESCRIPTION
Function_List.txt
LICENSE
LICENSE.md
NAMESPACE
R/cdif_data.R
R/check_clustering_on_tree.R
R/greatlakes_resource_usage.R
R/parse.R
R/parse_indels.R
R/parse_snps.R
R/reference_alleles.R
R/temp_save_small_data_sets.R
R/test_referencing_lib.R
R/utils-pipe.R
R/validate.R
README.md
data/cdif_indel_allele_matrix.RData
data/cdif_indel_code_matrix.RData
data/cdif_indel_parsed1.RData
data/cdif_indel_parsed3.RData
data/cdif_indel_parsed4.RData
data/cdif_indel_parsed5.RData
data/cdif_indel_parsed8.RData
data/cdif_snp_allele_matrix.RData
data/cdif_snp_code_matrix.RData
data/cdif_snp_parsed1.RData
data/cdif_snp_parsed2.RData
data/cdif_snp_parsed3.RData
data/cdif_snp_parsed4.RData
data/cdif_snp_parsed5.RData
data/cdif_snp_parsed6.RData
data/cdif_snp_parsed7.RData
data/cdif_snp_parsed8.RData
data/cdif_tree.RData
man/ConvertTimeToHours.Rd
man/GetResourceUsage.Rd
man/cdif_snp_allele_mat.Rd
man/cdif_snp_code_mat.Rd
man/cdif_tree.Rd
man/check_ref_choice.Rd
man/check_tree_clustering.Rd
man/convert_code_to_binary.Rd
man/define_reference_alleles.Rd
man/get_anc_alleles.Rd
man/get_annotation_info.Rd
man/get_indel_info_from_annotations.Rd
man/get_largest_subtree.Rd
man/get_snp_info_from_annotations.Rd
man/keep_sites_based_on_conf_logical.Rd
man/load_if_path.Rd
man/make_all_tree_edges_positive.Rd
man/parse_indels.Rd
man/parse_snp_or_indel.Rd
man/parse_snps.Rd
man/parsed_indel_cdif1.Rd
man/parsed_indel_cdif3.Rd
man/parsed_indel_cdif4.Rd
man/parsed_indel_cdif5.Rd
man/parsed_indel_cdif8.Rd
man/parsed_snp_cdif1.Rd
man/parsed_snp_cdif2.Rd
man/parsed_snp_cdif3.Rd
man/parsed_snp_cdif4.Rd
man/parsed_snp_cdif5.Rd
man/parsed_snp_cdif6.Rd
man/parsed_snp_cdif7.Rd
man/parsed_snp_cdif8.Rd
man/pipe.Rd
man/remove_NA_rows.Rd
man/remove_alt_allele_code_from_split_rows.Rd
man/remove_rows_with_multiple_annots.Rd
man/remove_rows_with_no_variants_or_completely_masked.Rd
man/remove_snps.Rd
man/remove_snps_or_indel.Rd
man/remove_unknown_anc.Rd
man/report_mat_type.Rd
man/reverse_list_str.Rd
man/root_tree_og.Rd
man/split_rows_with_multiple_annots.Rd
man/standardize_row_and_col_names.Rd
snitkitr.Rproj
tests/testthat.R
tests/testthat/test-greatlakes_resource_usage.R
tests/testthat/test_indel_parse_output.R
tests/testthat/test_snp_parse_output.R
