SeqSense NGS Data Analysis Software

SEQuoia RiboDepletion Kit

Retain rare transcripts, and get the most from your sequencing
samples with the SEQuoia RiboDepletion Kit.

On This Page

 SeqSense NGS Data Analysis Options SEQuoia and SeqSense NGS Data Analysis Workflow NGS Data Analysis Resources Related Products

SeqSense NGS Data Analysis is a purpose-built workflow for analyzing and visualizing the next-generation sequencing (NGS) data produced using the SEQuoia Complete Stranded RNA Library Prep Kit.

SeqSense NGS Data Analysis Software Options

SeqSense Analysis is available in two options to work online, as a web application, or deployed locally, using your own infrastructure, through a Docker container. Both versions use FASTQ files as input for secondary analysis, using the same underlying pipeline, and can produce BAM files, count matrices, and reports as output for tertiary analysis.

  • SEQuoia Analysis Toolkit
    Docker Container

    Downloadable SEQuoia Analysis Toolkit Docker Container with command line scripts and libraries.

    Download SEQuoia Complete

  • SEQuoia Express Docker
    Container

    Downloadable SEQuoia Express Docker Container with command line scripts and libraries.

    Download SEQuoia Express

  • SeqSense Analysis Solution
    Web App

    The SeqSense Web Application allows you to view, manage, and analyze your FASTQ sample files online.

 

SEQuoia and SeqSense NGS Analysis Software Documents

  • SeqSense Analysis Toolkit User Guide

    SEQuoia Complete Analysis Toolkit User Guide (494 KB)

    This tutorial illustrates how the SEQuoia Complete Analysis Toolkit is used with the SEQuoia Complete Stranded RNA Library Prep Kit, and provides the necessary information, scripts, and libraries to analyze the SeqSense Complete RNA data.

  • SeqSense Analysis Solution Web Application User Guide (691 KB)

    This tutorial illustrates how the SeqSense Analysis Solution is used with the SEQuoia Complete Stranded RNA Library Prep Kit to analyze the SeqSense Complete RNA data.


     

  • SEQuoia Express Analysis Toolkit User Guide (520 KB)

    This tutorial illustrates how SEQuoia Express Analysis Toolkit is used with the SEQuoia Express Stranded RNA Library Prep Kit.
     

  • SeqSense Analysis Solution Release Notes

    SeqSense Analysis Solution Web Application Release Notes (520 KB)

    These release notes summarize new features of the SeqSense that supports both SEQuoia Express Stranded RNA Library Kit and the SEQuoia Complete Stranded RNA Library Kit.
     

  • SEQuoia Express Analysis Toolkit FAQ

    SEQuoia Express Analysis Toolkit FAQ
    (107 KB)

    The information in the document is intended to answer specific questions that have been received regarding the SEQuoia Express Analysis Toolkit and SeqSense Analysis Solution applications.

  • SeqSense Analysis Solution FAQ

    SeqSense Analysis Solution Web Application FAQs (453 KB)

    The information in the document is intended to answer specific questions that have been received regarding the SEQuoia Express Analysis Toolkit and SeqSense Analysis Solution applications.

SEQuoia and SeqSense NGS Analysis Workflow

SeqSense NGS Data Analysis provides a bioinformatics pipeline uniquely optimized for mapping, aligning, counting, and normalizing reads generated from libraries containing both short and long RNA. Based on the STAR ultrafast universal RNA-seq aligner (Dobin 2013), the SeqSense RNA-Seq data analysis pipeline was designed to leverage the differentiated capabilities of the SEQuoia Complete Stranded RNA Library Prep Kit.

  • RNA-Seq Library Construction

    SEQuoia Complete Stranded RNA Library Prep Kit with Thermal Cycling

  • Sequencing

    Illumina NGS Platforms

  • Data Analysis Pipeline

    SeqSense Pipeline

  • Reporting & Visualization

    SeqSense Analysis Solutions & Toolkit

NGS Data Analysis Resources

  • The Power of SEQzyme

    Discover how SEQzyme, a proprietary, engineered retrotransposon efficiently captures all types and sizes of RNA species in a novel enzymatic reaction, significantly improving the diversity and quality of RNA libraries, even from limited or degraded RNA samples.

  • Revolutionizing Transcriptomics

    Learn how the new SEQuoia Complete Stranded RNA Library Prep Kit efficiently captures both long RNA and short RNAs less than 200 bp from all sample types, including limited or degraded RNA samples using a rapid, efficient, and sensitive workflow.

Citations

Dobin A, Davis CA, Schlesinger F, et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics. 2013;29(1):15–21. doi:10.1093/bioinformatics/bts635 PMCID: PMC3530905

Related Products

  • SEQuoia Complete Stranded RNA Library Prep Kit

    SEQuoia Complete Stranded RNA Library Prep Kit

    High-performance RNA-Seq kit that captures long and short RNAs in a single library.

  • SEQuoia RiboDepletion Kit

    Effectively eliminates ribosomal RNA and mitochondrial ribosomal RNA sequences from an RNA-Seq library.

  • Thermal Cyclers

    Thermal Cyclers for PCR

    Personal units and flexible modular thermal cyclers provide low- to high-throughput capabilities for all your PCR amplification needs

  • PCR Consumables

    PCR Plastic Consumables

    A large selection of thin-wall polypropylene PCR tubes, PCR plates, seals, and accessories precisely manufactured for various PCR applications

 

Single-Cell NGS Sample Preparation

  • Instruments

    ddSEQ Single-Cell Isolator

    The ddSEQ Single-Cell Isolator is part of the Bio-Rad Single-Cell Sequencing Solution for single-cell chromatin accessibility studies.

  • Kits

    SureCell ATAC-Seq Library Prep Kit

    Highly sensitive, single-cell ATAC-Seq assay for genome-wide open chromatin interrogation.