Method List
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#add_bwa_path_in_params CagnutBwa::Configuration
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#aln CagnutBwa::Base
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#aln CagnutBwa::Util
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#aln_one_fastq CagnutBwa::Base
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#aln_one_fastq CagnutBwa::Util
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#aln_params CagnutBwa::Configuration
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#aln_params_for_r1 CagnutBwa::Aln
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#aln_params_for_r1 CagnutBwa::AlnOneFastq
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#aln_params_for_r2 CagnutBwa::Aln
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#aln_params_for_r2 CagnutBwa::AlnOneFastq
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#attributes CagnutBwa::Configuration
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#bwa CagnutBwa::Util
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#bwa_samp_one_fastq CagnutBwa::SampOneFastq
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#check_bwa CagnutBwa::CheckTools
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#check_bwa_index CagnutBwa::CheckTools
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#check_ref_related CagnutBwa::CheckTools
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#check_tool CagnutBwa::CheckTools
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#config CagnutBwa::Util
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config CagnutBwa
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#fetch_filename CagnutBwa::Mem
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#fetch_filename CagnutBwa::Aln
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#fetch_filename CagnutBwa::SampOneFastq
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#fetch_filename CagnutBwa::AlnOneFastq
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#fetch_filename CagnutBwa::Samp
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#generate_rg_str CagnutBwa::Configuration
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#generate_script CagnutBwa::SampOneFastq
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#generate_script CagnutBwa::Mem
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#generate_script CagnutBwa::AlnOneFastq
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#generate_script CagnutBwa::Samp
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#generate_script CagnutBwa::Aln
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#initialize CagnutBwa::Aln
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#initialize CagnutBwa::AlnOneFastq
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#initialize CagnutBwa::Samp
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#initialize CagnutBwa::Util
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#initialize CagnutBwa::Mem
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#initizaline CagnutBwa::SampOneFastq
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#job_params CagnutBwa::SampOneFastq
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#job_params CagnutBwa::Aln
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#job_params CagnutBwa::Mem
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#job_params CagnutBwa::Samp
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load CagnutBwa::Configuration
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#load CagnutBwa::Configuration
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#mem CagnutBwa::Util
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#mem CagnutBwa::Base
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#mem_options CagnutBwa::Mem
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#mem_params CagnutBwa::Configuration
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#queuing_options CagnutBwa::Mem
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#queuing_options CagnutBwa::SampOneFastq
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#queuing_options CagnutBwa::Aln
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#queuing_options CagnutBwa::Samp
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#queuing_options CagnutBwa::AlnOneFastq
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#rg_str CagnutBwa::Configuration
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#run CagnutBwa::Mem
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#run CagnutBwa::Aln
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#run CagnutBwa::AlnOneFastq
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#run CagnutBwa::Samp
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#run CagnutBwa::SampOneFastq
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#samp CagnutBwa::Util
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#samp CagnutBwa::Base
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#samp_one_fastq CagnutBwa::Util
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#samp_one_fastq CagnutBwa::Base
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#samp_one_fastq_options CagnutBwa::SampOneFastq
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#samp_options CagnutBwa::Samp
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#samp_params CagnutBwa::Configuration
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#samse_one_fastq_options CagnutBwa::SampOneFastq