| data |
| unit_tests |
| add_cancer_gene_census.py | 7.23 KB |
| add_cancer_resistance_mutations.py | 7.16 KB |
| add_command.py | 2.82 KB |
| add_final_allele_counts_to_vcf.py | 6.62 KB |
| add_nygc_allele_counts_to_vcf.py | 19.52 KB |
| add_nygc_allele_counts_to_vcf_pon.py | 19.52 KB |
| annotate_id.py | 4.66 KB |
| ASP_modified_final.v.0.1.R | 9.92 KB |
| bedpe_to_vcf.r | 0 B |
| bicseq2_config_writer.py | 4.60 KB |
| bicseq2_seg_config_writer.py | 3.23 KB |
| calc_baf.py | 1.33 KB |
| Classes.py | 1.66 KB |
| compare_strings.py | 725 B |
| concate_tables.py | 2.26 KB |
| count_pon_sites.py | 1.87 KB |
| create_autocorrelation_input.v.0.1.pl | 1.57 KB |
| fathmm.py | 21.01 KB |
| filter_baf.py | 6.49 KB |
| filter_pon.py | 9.03 KB |
| filter_vcf.py | 4.44 KB |
| germ_filter_vcf.py | 6.15 KB |
| get_candidates.py | 2.88 KB |
| get_mutect_rate.py | 2.25 KB |
| gridss.sh | 35.25 KB |
| gridss_arrange.sh | 3.45 KB |
| make_maf.py | 20.08 KB |
| make_main_vcf.py | 8.49 KB |
| make_txt.py | 9.63 KB |
| merge_columns.py | 10.81 KB |
| merge_columns_pon.py | 9.25 KB |
| merge_exome_wgs_prep.py | 7.81 KB |
| merge_pon_sites.py | 1.95 KB |
| merge_prep.py | 8.71 KB |
| nygc_vcf.py | 7.71 KB |
| parse_bam_generate_features.py | 16.83 KB |
| plot_bin_cov.R | 7.05 KB |
| plotting.R | 11.04 KB |
| README.md | 0 B |
| remove_contig.py | 1.33 KB |
| rename_csq_vcf.py | 5.62 KB |
| rename_exome_wgs_metadata.py | 5.63 KB |
| rename_metadata.py | 5.61 KB |
| rename_vcf.py | 3.28 KB |
| rename_vcf_pon.py | 2.12 KB |
| reorder_vcf.py | 3.60 KB |
| reset_mantis.py | 2.97 KB |
| reset_pon.py | 3.33 KB |
| run_deconstructSigs.R | 5.21 KB |
| run_deconstructSigs.v2.R | 5.21 KB |
| SNVsToMNVs_AnnotateExomeWgsCalled.py | 6.20 KB |
| SNVsToMNVs_CountsBasedFilter_AnnotateHighConf.py | 9.89 KB |
| split_mnv.py | 6.73 KB |
| split_vcf.py | 5.12 KB |
| unique_bams.py | 1.10 KB |
| update_cram_info.py | 2.25 KB |
| vcf_filter.py | 2.48 KB |
| vcf_to_bed.py | 2.52 KB |
| vcf_to_bedpe.r | 3.97 KB |
