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VariantSeq: tutorial for usage with case study.

  1. Home
  2. Courses
  3. VariantSeq Tutorial
  4. Preprocessing
  • 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

Preprocessing

    • 01_PRINSEQ01_PRINSEQ
      • summarysummary
        • CAN2_R1_all_CAN2_R2_all_summary.txtCAN2_R1_all_CAN2_R2_all_summary.txt
        • CAN3_R1_all_CAN3_R2_all_summary.txtCAN3_R1_all_CAN3_R2_all_summary.txt
        • CAN4_R1_all_CAN4_R2_all_summary.txtCAN4_R1_all_CAN4_R2_all_summary.txt
        • CAN5_R1_all_CAN5_R2_all_summary.txtCAN5_R1_all_CAN5_R2_all_summary.txt
        • CAN12_R1_all_CAN12_R2_all_summary.txtCAN12_R1_all_CAN12_R2_all_summary.txt
      • CAN2_R1_all.fastq.gzCAN2_R1_all.fastq.gz
      • CAN2_R2_all.fastq.gzCAN2_R2_all.fastq.gz
      • CAN3_R1_all.fastq.gzCAN3_R1_all.fastq.gz
      • CAN3_R2_all.fastq.gzCAN3_R2_all.fastq.gz
      • CAN4_R1_all.fastq.gzCAN4_R1_all.fastq.gz
      • CAN4_R2_all.fastq.gzCAN4_R2_all.fastq.gz
      • CAN5_R1_all.fastq.gzCAN5_R1_all.fastq.gz
      • CAN5_R2_all.fastq.gzCAN5_R2_all.fastq.gz
      • CAN12_R1_all.fastq.gzCAN12_R1_all.fastq.gz
      • CAN12_R2_all.fastq.gzCAN12_R2_all.fastq.gz
    • 02_FASTQC_PRINSEQ02_FASTQC_PRINSEQ
      • CAN2_R1_all_fastqc.htmlCAN2_R1_all_fastqc.html
      • CAN2_R2_all_fastqc.htmlCAN2_R2_all_fastqc.html
      • CAN3_R1_all_fastqc.htmlCAN3_R1_all_fastqc.html
      • CAN3_R2_all_fastqc.htmlCAN3_R2_all_fastqc.html
      • CAN4_R1_all_fastqc.htmlCAN4_R1_all_fastqc.html
      • CAN4_R2_all_fastqc.htmlCAN4_R2_all_fastqc.html
      • CAN5_R1_all_fastqc.htmlCAN5_R1_all_fastqc.html
      • CAN5_R2_all_fastqc.htmlCAN5_R2_all_fastqc.html
      • CAN12_R1_all_fastqc.htmlCAN12_R1_all_fastqc.html
      • CAN12_R2_all_fastqc.htmlCAN12_R2_all_fastqc.html
  • Preprocessing
  • Home
  • Calendar
  • Course sections
    • 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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Valencia Lab
Parc Cientific Universitat de Valencia
Carrer del Catedràtic Agustín Escardino, 9. 46980 Paterna (Valencia) Spain
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Parque Científico de Madrid
Campus de Cantoblanco
Calle Faraday 7, 28049 Madrid Spain
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Email: biotechvana@biotechvana.com

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