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pipeline

Some useful pipelines for UM cluster

Name		Name	Last commit message	Last commit date
Latest commit History 94 Commits
trf_scripts		trf_scripts
README.md		README.md
generate_bwamem_mapping_pipeline.pl		generate_bwamem_mapping_pipeline.pl
generate_freebayes_calling_pipeline_makefile.pl		generate_freebayes_calling_pipeline_makefile.pl
generate_gatk_haplotypecaller_calling_pipeline_makefile.pl		generate_gatk_haplotypecaller_calling_pipeline_makefile.pl
generate_gatk_unifiedgenotyper_calling_pipeline_makefile.pl		generate_gatk_unifiedgenotyper_calling_pipeline_makefile.pl
generate_gatk_vqsr_pipeline_makefile.pl		generate_gatk_vqsr_pipeline_makefile.pl
generate_lobstr_calling_pipeline_makefile.pl		generate_lobstr_calling_pipeline_makefile.pl
generate_mapping_pipeline.pl		generate_mapping_pipeline.pl
generate_platypus_calling_pipeline_makefile.pl		generate_platypus_calling_pipeline_makefile.pl
generate_samtools_calling_pipeline_makefile.pl		generate_samtools_calling_pipeline_makefile.pl
generate_scalpel_calling_pipeline_makefile.pl		generate_scalpel_calling_pipeline_makefile.pl
generate_trf_calling_pipeline_makefile.pl		generate_trf_calling_pipeline_makefile.pl
generate_variant_evaluation_pipeline_makefile.pl		generate_variant_evaluation_pipeline_makefile.pl
generate_vt2_calling_makefile.pl		generate_vt2_calling_makefile.pl
generate_vt2_genotyping_makefile.pl		generate_vt2_genotyping_makefile.pl
generate_vt_calling_makefile.pl		generate_vt_calling_makefile.pl
generate_vt_calling_makefile.py		generate_vt_calling_makefile.py
generate_vt_compute_features_makefile.pl		generate_vt_compute_features_makefile.pl
generate_vt_genotyping_makefile.pl		generate_vt_genotyping_makefile.pl
generate_vt_topmed_freeze2_calling_makefile.pl		generate_vt_topmed_freeze2_calling_makefile.pl
generate_vt_topmed_freeze3_calling_makefile.pl		generate_vt_topmed_freeze3_calling_makefile.pl
generate_vt_v0.01_calling_makefile.pl		generate_vt_v0.01_calling_makefile.pl
run.sh		run.sh

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pipeline

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