LogoLogo
Illumina KnowledgeIllumina SupportSign In
DRAGEN Single Cell RNA
  • Home
DRAGEN Single Cell RNA
  • Introduction
  • Get Started
    • Prerequisites
  • Run Set Up
    • Sample Sheet Introduction
    • Run Planning in BaseSpace Sequence Hub
    • Sample Sheet Requirements
    • Manual Launch on BaseSpace
  • Analysis Methods
    • FASTQ Processing
    • Error Correction
    • Transcript Counting
    • PIPseq CRISPR Mode
  • Analysis Results
    • Accessing Results
    • DRAGEN Report
      • Single-Cell RNA
      • Single-Cell Clustering
      • Trimmer
      • DRAGEN FastQC
      • Mapping
    • Secondary Analysis Results
  • Tertiary Analysis
    • Illumina Connected Multiomics
Powered by GitBook
On this page

Was this helpful?

Export as PDF
  1. Analysis Results

Secondary Analysis Results

The following table describes the files created during secondary analysis:

File
Description

<Sample_ID>.scRNA.bam

Binary Alignment Map (BAM) files containing information about all reads in the input FASTQ files that were mapped to the reference genome

<Sample_ID>.scRNA.bam.bai

Index file for the BAM for use by downstream applications

<Sample_ID>.scRNA.barcodeCounts.txt

Text file containing the counts per barcode

<Sample_ID>.scRNA.barcodeSummary.tsv

Summary of barcode statistics

<Sample_ID>.scRNA_metrics.csv

Single cell metrics summary with assay sensitivity and quality metrics

<Sample_ID>.scRNA.matrix.mtx.gz

Sparse matrix with rows that represent features and genes detected, and columns that consist of all barcodes that were detected

<Sample_ID>.scRNA.features.tsv.gz

Information about the features corresponding to the rows of the sparse matrix

<Sample_ID>.scRNA.barcodes.tsv.gz

List of barcodes corresponding to the columns of the sparse matrix

<Sample_ID>.scRNA.filtered.matrix.mtx.gz

Filtered sparse matrix with rows that represent features and genes detected, and columns that consist of all barcodes that were detected

<Sample_ID>.scRNA.filtered.features.tsv.gz

Information about the features corresponding to the rows of the filtered sparse matrix

<Sample_ID>.scRNA.filtered.barcodes.tsv.gz

List of barcodes corresponding to the columns of the filtered sparse matrix

PreviousMappingNextIllumina Connected Multiomics

Last updated 4 months ago

Was this helpful?