| config_files |
| HYSYS |
| MultiQC |
| R_libs/gridss |
| sig_plot |
| .gitignore | 6 B |
| add_bam_stats.py | 6.74 KB |
| add_umi_tag_to_bam.py | 2.22 KB |
| add_umi_to_header.py | 3.72 KB |
| addbamstats.pl | 15.32 KB |
| addbamstats_ori.pl | 14.84 KB |
| addRepeatMasker.py | 2.07 KB |
| addSampleIDtoHeader.py | 448 B |
| afterqc_standardise_output.sh | 292 B |
| AppendTranscriptIndex.pl | 3.62 KB |
| bedpe_gridss2clove.sh | 669 B |
| calculate_strelka_somatic_ad_af.py | 2.78 KB |
| chronQC_updateDB.sh | 10.74 KB |
| circos_plot_facets_gridss.R | 3.41 KB |
| circos_plot_facets_manta.R | 4.54 KB |
| cnspectorx_post_sample.py | 13.92 KB |
| cnspectorx_static_reference.sh | 1.54 KB |
| combine_vcf.py | 10.17 KB |
| coverageBed.sh | 1.45 KB |
| gaffa_post_sample.py | 6.22 KB |
| GenerateGaffaDcf.py | 11.79 KB |
| intersectBed.sh | 1.82 KB |
| jaffa_wrapper.sh | 639 B |
| MegaFusion.py | 8.22 KB |
| merge_vcf_vep.pl | 14.07 KB |
| merge_vcf_vep.py | 16.97 KB |
| molpath_qc_pull_drop_gene.sh | 2.16 KB |
| mp-vep-78.sh | 2.49 KB |
| mp-vep-90.sh | 2.73 KB |
| mp-vep-parallel.py | 5.05 KB |
| mp-vep.sh | 1.51 KB |
| mp_contra_column.sh | 455 B |
| multiqc_wrapper.sh | 7.61 KB |
| normalisedvcf.py | 7.82 KB |
| Performance.pm | 21.33 KB |
| performance_summary.py | 9.75 KB |
| performance_summary_wrapper.sh | 2.98 KB |
| PerformanceHalo.pm | 21.11 KB |
| PerformanceSummary.pl | 1.12 KB |
| PerformanceSummary_HALO.pl | 1.13 KB |
| process-GRIDSS-output-single.R | 4.95 KB |
| process-GRIDSS-output.R | 6.46 KB |
| removeDuplicates.py | 11.65 KB |
| replace_N_fusion_vcf.py | 524 B |
| rna-diff_splicing.R | 3.57 KB |
| rna-seqc-summary.R | 491 B |
| rna-seqc-summary.sh | 240 B |
| Run_deconstructSig.R | 1.36 KB |
| run_HYSYS.sh | 7.28 KB |
| run_removeDup.sh | 403 B |
| sig_plot.R | 1.32 KB |
| snp_signature.sh | 1.08 KB |
| SNPBackbone_analysis.py | 1.89 KB |
| SortSam.sh | 71 B |
| trimIUPAC.py | 2.78 KB |
| Util.pm | 1.80 KB |
| variant.py | 17.34 KB |
| variant_effect_predictor.pl | 103.59 KB |
| variant_effect_predictor_v73.pl | 113.55 KB |
| vcfExtractDP_AD.py | 5.61 KB |
| vcffilter.sh | 1.12 KB |
| vcfGetAverageDP_AD.py | 3.23 KB |
| vcfheader.py | 6.08 KB |
| vcflength.sh | 527 B |
| vcfReduceFormatInfo.py | 2.02 KB |
| vs2vcf.pl | 1.20 KB |
| vsHeader.py | 1.04 KB |
| vsSomatic2vcf.py | 1.01 KB |
| wgs_perfsummary.py | 5.14 KB |
