Mission Bio Support Center Help Center home page
Support Center

Tapestri Pipeline

From FASTQ to annotated VCF files – learn how Tapestri Pipeline works from start to finish.

    1. Mission Bio Support Center
    2. Tapestri Pipeline
    • Tapestri DNA Pipeline v1

      • Tapestri DNA Pipeline v1 User Guide
      • Pipeline execution status and failure
      • Preflight checks (QC)
      • Alignment to VCF
      • Loom file generation
      • Create Mission Bio account
      • Introduction to Tapestri DNA Pipeline v1
      • Launch Tapestri DNA Pipeline v1
      • Set up Mission Bio Service Connector
    • Output Files v1

      • DNA Pipeline output files overview
      • File: barcode.cell.coverage.tsv
      • File: barcode.cell.distribution.merged.tsv
      • File: CellFinder_report.pdf
      • File: cells.loom
      • File: cells.vcf.gz
      • File: index.cells.bam
      • File: index.mapped.bam
      • File: summary.txt
    • Algorithms Overview

      • Adapter trimming and barcode extraction
      • ADO Calculation
      • Barcode correction
      • Cell calling
      • Custom FLT3-ITD calling
      • FASTQ quality analysis
      • Genome alignment
      • Genotype calling
      • .h5 file generation
      • .loom file generation algorithm
    • FAQs

      • Does the Tapestri Platform support detection of VDJ?
      • How do I find the version number of DNA Pipeline?
      • How do I access an existing Pipeline account?
      • Can I test Pipeline if I am not a customer?
      • Can I install the Tapestri Pipeline locally?
      • How do I delete a panel file in Pipeline?
      • What are ITDs?
      • Can I use my servers for data storage?
      • Which genotype caller does Pipeline use?
      • What files do I need to run Pipeline?
      • What files does DNA Pipeline generate?
      • Which format does the .vcf file conform to?
      • Can Designer panel files be used with Pipeline?
      • What is the Tapestri barcode structure?
      • How is the doublet rate calculated?
      • Can I use another pipeline for processing data?
      • Where can I find demo datasets?
      • Which sequence aligner does Pipeline use?
      • What are typical processing times for Pipeline?
      • What are blacklisted variants?
      • Are my files uploading to BlueBee?
      • Why aren’t my files uploading?
      • What are the QC error messages?
      • Can Tapestri Pipeline detect CNVs?
      • Are single-cell RNA-seq applications enabled?
      • What are the ADO rate, doublet rate, and LOD?
      • Does Pipeline demultiplex samples or cells?
      • How does Pipeline call cells?
      • Does Pipeline call only somatic mutations?
      • How does Pipeline call genotypes?
    • Release Notes

      • Release Notes
    • Tapestri Pipeline v2

      • Pipeline v2 Getting Started Guide
      • Tapestri Pipeline v2 User Guide
      • Run Report Metrics
      • FAQ: What are the major differences between Pipeline v1 and v2?
      • FAQ: What are the Pipeline v2 Output Files?
      • FAQ: Why won't my output files download?
      • FAQ: Why can't I add users to my group?
      • FAQ: How do I generate an Illumina BaseSpace Access Token?
      • FAQ: How does Pipeline integrate with Amazon S3 buckets?
    • Tapestri DNA Pipeline v1

      • Tapestri DNA Pipeline v1 User Guide
      • Pipeline execution status and failure
      • Preflight checks (QC)
      • Alignment to VCF
      • Loom file generation
      • Create Mission Bio account
      • Introduction to Tapestri DNA Pipeline v1
      • Launch Tapestri DNA Pipeline v1
      • Set up Mission Bio Service Connector
    • Output Files v1

      • DNA Pipeline output files overview
      • File: barcode.cell.coverage.tsv
      • File: barcode.cell.distribution.merged.tsv
      • File: CellFinder_report.pdf
      • File: cells.loom
      • File: cells.vcf.gz
      • File: index.cells.bam
      • File: index.mapped.bam
      • File: summary.txt
    • Algorithms Overview

      • Adapter trimming and barcode extraction
      • ADO Calculation
      • Barcode correction
      • Cell calling
      • Custom FLT3-ITD calling
      • FASTQ quality analysis
      • Genome alignment
      • Genotype calling
      • .h5 file generation
      • .loom file generation algorithm
    • FAQs

      • Does the Tapestri Platform support detection of VDJ?
      • How do I find the version number of DNA Pipeline?
      • How do I access an existing Pipeline account?
      • Can I test Pipeline if I am not a customer?
      • Can I install the Tapestri Pipeline locally?
      • How do I delete a panel file in Pipeline?
      • What are ITDs?
      • Can I use my servers for data storage?
      • Which genotype caller does Pipeline use?
      • What files do I need to run Pipeline?
      • What files does DNA Pipeline generate?
      • Which format does the .vcf file conform to?
      • Can Designer panel files be used with Pipeline?
      • What is the Tapestri barcode structure?
      • How is the doublet rate calculated?
      • Can I use another pipeline for processing data?
      • Where can I find demo datasets?
      • Which sequence aligner does Pipeline use?
      • What are typical processing times for Pipeline?
      • What are blacklisted variants?
      • Are my files uploading to BlueBee?
      • Why aren’t my files uploading?
      • What are the QC error messages?
      • Can Tapestri Pipeline detect CNVs?
      • Are single-cell RNA-seq applications enabled?
      • What are the ADO rate, doublet rate, and LOD?
      • Does Pipeline demultiplex samples or cells?
      • How does Pipeline call cells?
      • Does Pipeline call only somatic mutations?
      • How does Pipeline call genotypes?
    • Release Notes

      • Release Notes
    • Tapestri Pipeline v2

      • Pipeline v2 Getting Started Guide
      • Tapestri Pipeline v2 User Guide
      • Run Report Metrics
      • FAQ: What are the major differences between Pipeline v1 and v2?
      • FAQ: What are the Pipeline v2 Output Files?
      • FAQ: Why won't my output files download?
      • FAQ: Why can't I add users to my group?
      • FAQ: How do I generate an Illumina BaseSpace Access Token?
      • FAQ: How does Pipeline integrate with Amazon S3 buckets?
    Terms & Conditions Privacy & Cookies Policy
    Copyright © 2020 Mission Bio. All rights reserved.