Files

• Changes
• MANIFEST
• META.json
• META.yml
• Makefile.PL
• lib/Shatterproof.pm
• sample_data/cnv/sample_cnv.spc
• sample_data/example_guide.txt
• sample_data/indels/sample_indels.vcf
• sample_data/loh/sample_loh.spl
• sample_data/trans/sample_trans.spt
• scripts/breakdancer_to_spt.pl
• scripts/cnver_to_spc.pl
• scripts/config.pl
• scripts/freec_to_spc.pl
• scripts/gasv_to_spt.pl
• scripts/oncoscan_to_spl.pl
• scripts/shatterproof.pl
• scripts/svdetect_to_spt.pl
• scripts/tigra_to_spt.pl
• t/SPtesting.pm
• t/analyze_cnv_data.t
• t/analyze_likely_regions.t
• t/analyze_trans_data.t
• t/calculate_chromosome_localization.t
• t/calculate_genome_localization.t
• t/calculate_interchromosomal_translocation_rate.t
• t/check_copy_number_count.t
• t/check_copy_number_switches.t
• t/empty.txt
• t/json/chromosome_cnv_breakpoints_hash_ref_test_1.json
• t/json/chromosome_copy_number_count_hash_ref_test_1.json
• t/json/chromosome_translocation_count_hash_ref_test_1.json
• t/json/genome_cnv_data_hash_ref_test_1.json
• t/json/genome_cnv_data_windows_hash_ref.json
• t/json/genome_mutation_data_windows_hash_ref.json
• t/json/genome_mutation_density_hash_ref_test_1.json
• t/json/genome_trans_breakpoints_hash_ref_test_1.json
• t/json/genome_trans_data_hash_ref_test_1.json
• t/json/genome_trans_data_windows_hash_ref.json
• t/json/likely_regions_array_ref.json
• t/json/suspect_regions_array_ref.json
• t/ref/TP53.spc.ref
• t/ref/TP53.spt.ref
• t/ref/TP53_non.spc.ref
• t/ref/TP53_non.spt.ref
• t/ref/chr10_cnv_localization.log.ref
• t/ref/chr10_cnv_localization.log.ref.mswin32
• t/ref/chr11_cnv_localization.log.ref
• t/ref/chr11_cnv_localization.log.ref.mswin32
• t/ref/chr1_cnv_localization.log.ref
• t/ref/chr1_cnv_localization.log.ref.mswin32
• t/ref/chr21_translocation_localization.log.ref
• t/ref/chr21_translocation_localization.log.ref.mswin32
• t/ref/chr2_translocation_localization.log.ref
• t/ref/chr2_translocation_localization.log.ref.mswin32
• t/ref/chr3_translocation_localization.log.ref
• t/ref/chr3_translocation_localization.log.ref.mswin32
• t/ref/chr4_mutation_localization.log.ref
• t/ref/chr4_mutation_localization.log.ref.mswin32
• t/ref/chrX_mutation_localization.log.ref
• t/ref/chrX_mutation_localization.log.ref.mswin32
• t/ref/chrY_mutation_localization.log.ref
• t/ref/chrY_mutation_localization.log.ref.mswin32
• t/ref/copy_number_count.log.ref
• t/ref/copy_number_switches.log.ref
• t/ref/genome_localization.log.ref
• t/ref/interchromosomal_translocation_rate.log.ref
• t/ref/likely_regions.log.ref
• t/spc/testing_cnv_1.spc
• t/spc/testing_cnv_2.spc
• t/spc/testing_cnv_invalid_data.spc
• t/spc/testing_cnv_invalid_header.spc
• t/spc/testing_cnv_tp53.spc
• t/spt/testing_trans_1.spt
• t/spt/testing_trans_2.spt
• t/spt/testing_trans_invalid_data.spt
• t/spt/testing_trans_invalid_header.spt
• t/spt/testing_trans_tp53.spt
• t/standard_deviation_and_mean.t
• t/test_config.pl