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VariantSeq: tutorial for usage with case study.

  1. Página Principal
  2. Nuestros cursos
  3. VariantSeq Tutorial
  4. Variant filtering
  • CONTENTS
  • 1. PRELIMINARY INFORMATION
    • 1.1 - Tutorial objective
    • 1.2 - Tutorial material and case study
    • 1.3 - Experiment design and support
    • 1.4 - Installing and activating VariantSeq and the Server-Side
  • 2. STEP-BY-STEP MODE TUTORIAL
    • 2.1 - Preparing your experiment
    • 2.2 - Quality analysis and preprocessing
    • 2.3 - Mapping
    • 2.4 - Postprocessing
    • 2.5 - Variant calling
    • 2.6 - Variant filtering
    • 2.7 - Annotation
  • 3. PIPELINE MODE TUTORIAL
  • 4. BIBLIOGRAPHY
  • CITE US

Variant filtering

    • calculateContaminationcalculateContamination
      • CAN2_R.contamination.tableCAN2_R.contamination.table
      • CAN3_R.contamination.tableCAN3_R.contamination.table
      • CAN4_R.contamination.tableCAN4_R.contamination.table
      • CAN5_R.contamination.tableCAN5_R.contamination.table
      • CAN12_R.contamination.tableCAN12_R.contamination.table
    • filterMutectCallsfilterMutectCalls
      • CAN2_R.vcfCAN2_R.vcf
      • CAN2_R.vcf.filteringStats.tsvCAN2_R.vcf.filteringStats.tsv
      • CAN2_R.vcf.idxCAN2_R.vcf.idx
      • CAN3_R.vcfCAN3_R.vcf
      • CAN3_R.vcf.filteringStats.tsvCAN3_R.vcf.filteringStats.tsv
      • CAN3_R.vcf.idxCAN3_R.vcf.idx
      • CAN4_R.vcfCAN4_R.vcf
      • CAN4_R.vcf.filteringStats.tsvCAN4_R.vcf.filteringStats.tsv
      • CAN4_R.vcf.idxCAN4_R.vcf.idx
      • CAN5_R.vcfCAN5_R.vcf
      • CAN5_R.vcf.filteringStats.tsvCAN5_R.vcf.filteringStats.tsv
      • CAN5_R.vcf.idxCAN5_R.vcf.idx
      • CAN12_R.vcfCAN12_R.vcf
      • CAN12_R.vcf.filteringStats.tsvCAN12_R.vcf.filteringStats.tsv
      • CAN12_R.vcf.idxCAN12_R.vcf.idx
  • Variant filtering
  • Página Principal
  • Calendario
  • Secciones del curso
    • CONTENTS
    • 1. PRELIMINARY INFORMATION
    • 1.1 - Tutorial objective
    • 1.2 - Tutorial material and case study
    • 1.3 - Experiment design and support
    • 1.4 - Installing and activating Variantseq and the Server-Side
    • 2. STEP-BY-STEP MODE TUTORIAL
    • 2.1 - Preparing your experiment
    • 2.2 - Quality analysis and preprocessing
    • 2.3 - Mapping
    • 2.4 - Postprocessing
    • 2.5 - Variant calling
    • 2.6 - Variant filtering
    • 2.7 - Annotation
    • 3. PIPELINE MODE TUTORIAL
    • 4. BIBLIOGRAPHY
    • Pipeline mode: SNP/Indels results
    • CITE US
    • 4. BIBLIOGRAPHY
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