Table of Contents - cagnut_pipeline_draw-0.3.1 Documentation
Classes and Modules
- Cagnut
- Cagnut::Cli
- Cagnut::Cli::NewProject
- Cagnut::Cli::NewProject::Draw
- Cagnut::Cli::Pipeline
- Cagnut::Cli::Pipeline::Draw
- CagnutPipelineDraw
- CagnutPipelineDraw::Configuration
- CagnutPipelineDraw::Configuration::Utils
- CagnutPipelineDraw::Pipeline
- CagnutPipelineDraw::Pipeline::Alignment
- CagnutPipelineDraw::Pipeline::Recalibration
- CagnutPipelineDraw::Pipeline::VariantCall
Methods
- ::config_name — CagnutPipelineDraw
- ::create_output_dirs — CagnutPipelineDraw::Configuration::Utils
- ::draw_pipeline_folders — CagnutPipelineDraw::Configuration::Utils
- ::new — CagnutPipelineDraw::Pipeline::Alignment
- ::new — CagnutPipelineDraw::Pipeline::Recalibration
- ::new — CagnutPipelineDraw::Pipeline::VariantCall
- ::pipeline_names — CagnutPipelineDraw
- ::root — CagnutPipelineDraw
- #actgun_pipeline_draw_root — Cagnut::Cli::NewProject::Draw
- #bwa_aln_dirs — CagnutPipelineDraw::Pipeline::Alignment
- #bwa_samp_dirs — CagnutPipelineDraw::Pipeline::Alignment
- #copy_draw_tools_config — Cagnut::Cli::NewProject::Draw
- #draw_pipeline_dependency_gems — Cagnut::Cli::NewProject::Draw
- #gatk_count_read_dirs — CagnutPipelineDraw::Pipeline::Recalibration
- #gatk_depth_of_coverage_dirs — CagnutPipelineDraw::Pipeline::VariantCall
- #gatk_recal_dirs — CagnutPipelineDraw::Pipeline::Recalibration
- #gatk_snpcal_dirs — CagnutPipelineDraw::Pipeline::VariantCall
- #gatk_unified_genotyper_dirs — CagnutPipelineDraw::Pipeline::VariantCall
- #make_required_folders — CagnutPipelineDraw::Configuration
- #picard_add_read_group_dirs — CagnutPipelineDraw::Pipeline::Alignment
- #picard_markup_dirs — CagnutPipelineDraw::Pipeline::Recalibration
- #picard_picard_qc_metrics_dirs — CagnutPipelineDraw::Pipeline::Recalibration
- #pipeline_draw — Cagnut::Cli::Pipeline::Draw
- #pipeline_draw1 — Cagnut::Cli::Pipeline::Draw
- #pipeline_draw2 — Cagnut::Cli::Pipeline::Draw
- #pipeline_draw3 — Cagnut::Cli::Pipeline::Draw
- #run — CagnutPipelineDraw::Pipeline::Alignment
- #run — CagnutPipelineDraw::Pipeline::Recalibration
- #run — CagnutPipelineDraw::Pipeline::VariantCall
- #run_filter — Cagnut::Cli::Pipeline::Draw
- #samtools_do_flag_stat_dirs — CagnutPipelineDraw::Pipeline::Recalibration
- #samtools_merge_bam_dirs — CagnutPipelineDraw::Pipeline::Alignment
- #samtools_mg_bam_soft_link_dirs — CagnutPipelineDraw::Pipeline::Alignment
- #snpeff_snp_annotation_dirs — CagnutPipelineDraw::Pipeline::VariantCall
- #toolbox_qseq2fastq_dirs — CagnutPipelineDraw::Pipeline::Alignment