Shop All Sequencing & Genetic Analysis Software

Variant Reporter™ v1.1 Upgrade from v1.0 (Applied Biosystems™)

This product can only be used to upgrade Variant Reporter® v1.0 installed on standalone computers – computers separate from the instrument data collection system. Please talk with your Sales Representative to upgrade the data collection system and secondary analysis software running on the data collection computer.

For Research Use Only. Not for use in diagnostics procedures.

MicroSEQ™ ID Microbial Identification Software v3.0 Lite (3 licenses) (Applied Biosystems™)

MicroSEQ® ID Microbial Identification Software allows you to easily identify and classify unidentified bacterial or fungal sequences by comparing them to a validated microbial library. The Lite version of the software can be used on a stand-alone PC (not connected to the genetic analyzer) for simple analyses.

• A validated library of over 2300 microbial sequences help ensure you get the answers you need
• Automatically identify unknown specimens
• Run plates on Applied Biosystems® 3500 Series Genetic Analyzers directly via the MicroSEQ® ID Software
• MicroSEQ® system is a complete integrated solution, including security, audit, and e-signature features
• Qualification and validation support
• Multi-license bundle enabling system software installation on up to 3 computers

Confidently Identify Microbes
The MicroSEQ® system comprises bacterial libraries of 500 bp sequences and over 2300 validated entries--including extensive coverage of gram-negative nonfermenters, Bacillus, Coryneforms, Mycobacteria, and Staphylococcus. Another library containing more than 1100 entries is available for fungal identification. To help ensure accurate identification of the species of your sequences, we rigorously validate all library entries. And unlike other widely available databases, MicroSEQ® libraries contain only correctly identified organisms and quality-controlled sequences derived from type strains of preeminent culture collections. The libraries also support sequence polymorphisms, and include bacterial Category A biothreat agents.

Automatically Identify Unknown Specimens
Reviewing each specimen in a project file to make a manual identification call can be tedious and time consuming. The new Auto-ID feature in MicroSEQ® ID Software v3.0 uses a set of editable parameters to automatically identify unknown specimens. The results table is displayed in the report, and an editable comments field allows additional information or manual identifications to be entered into the same table.

Run Plates on 3500/3500xL Instruments Directly via the MicroSEQ® ID Software
Applied Biosystems® 3500 Series Genetic Analyzer users are now able to run plates on these instruments directly via the MicroSEQ® ID Software v3.0 user interface, without needing Autoanalysis Manager. A single software wizard enables you to set up projects, specimens, and plates; adjust the plate layout via drag and drop; start and monitor the run; and review results.

The MicroSEQ® System: A Complete, Integrated Solution
Streamlining every step in microbial identification, the Applied Biosystems® MicroSEQ® system combines the advantages of MicroSEQ® ID Software with easy to use PrepMan® Ultra sample preparation reagents and protocols, MicroSEQ® bacterial and fungal application kits, and industry-leading thermal cyclers and sequencing systems. To help ensure optimal performance and system-wide integration, we develop and test all components of the system together. The MicroSEQ® ID Software also includes security, audit, and electronic signature features enabling the software to smoothly integrate into your workflow.

Qualification and Validation Support
To help ensure seamless integration into your laboratory, from installation to routine operation, we offer comprehensive installation and operational qualification (IQ/OQ) and validation support services.

For Research Use Only. Not for use in diagnostics procedures.

MicroSEQ™ ID Microbial Identification Software v2.1.1 Upgrade (Applied Biosystems™)

This upgrade converts earlier versions of MicroSEQ® ID to version 2.1.1.

For Research Use Only. Not for use in diagnostics procedures.

Avadis™ NGS Software Academic License (Applied Biosystems™)

Avadis® NGS is a desktop software platform for analysis, visualization, and management of data generated by Next-Generation Sequencing (NGS) platforms. It supports workflows for Alignment, DNA-Seq, RNA-Seq, Small RNA-Seq and ChIP-Seq analysis and is designed with the biologist in mind.

Alignment
Avadis NGS supports an inbuilt alignment algorithm called COBWeb that supports the alignment of both short and long reads with an arbitrary number of gaps and mismatches. It also includes support for paired end reads and a variety of trimming options and screening databases.

DNA-Seq
The DNA-Seq workflow in Avadis NGS supports the detection of SNPs and small Insertion and Deletions (InDels). SNPs and InDels are discovered and annotated with information from dbSNP or other sources such as BIOBASE GenomeTrax annotations. The effect of a SNP or InDel on the coding regions can be assessed to identify "NON-SYNONYMOUS-CODING SNP", "FRAMESHIFT InDel", etc. In multi-sample scenarios, one can determine significant SNPs such as High Confidence Common Variants, Low Frequency Common Mutations, etc. Larger structural variations including large insertions, deletions, translocations and inversions can be detected with paired end data.

RNA-Seq
Avadis® NGS supports the RNA-Seq workflow for the study of the transcriptome. In addition to the classical differential gene expression analysis using the normalized expression levels, Avadis® NGS Software allows for the detection of alternatively spliced transcripts as well and provides a unique visualization of the spliced transcripts with the special gene view. Both known and novel splice variants can be discovered and there is functionality to discover complete new genes and transcripts as well as gene fusion products.

Small RNA-Seq
The Small RNA-Seq workflow in Avadis® NGS supports quantification of small RNA data including miRNA, tRNA, snRNA and snoRNA. Novel small RNA genes can also be detected and analyzed. It supports the ability to perform differential gene expression analysis for both known and novel genes for different experimental setups. Additionally, for miRNA genes, a variety of target enrichment databases are supported. The identified targets can be further analyzed with the Gene Ontology and Pathway Analysis tools.

ChIP-Seq
The ChIP-Seq experiment workflow in Avadis® NGS Software allows for the detection of peak regions in the genome using a variety of peak-finding algorithms such as PICS and MACS. For transcription factors the motif-detection algorithm GADEM can be used to identify potential motifs at these binding sites. The genes regulated by those transcription factors can be further analyzed using biological interpretation steps.

More details about Avadis® NGS can be found at http://www.avadis-ngs.com/

Ridom™ SeqSphere+ Software for Ion Torrent™ Systems (Academic/Government) (Ion Torrent™)

SeqSphere+ Software from Ridom allows for automatic processing and analyzing of microbial sequence data obtained from Ion Torrent™ systems. SeqSphere+ Software enables whole genome microbial typing (MLST+) or traditional MLST sequencing projects. This software is designed both for individual labs and for distributed work-groups (client/server model) to enable easy data sharing. License options are available for 1, 3, or 5 years; 2 or 5 seats; and commercial or academic/government labs.

Ridom SeqSphere+ Software Features:

User-friendly: no scripting skills or bioinformatician needed

Highly automated workflow: download a pre-designed task template or create a custom template, then apply it to the analysis of hundreds of strains with almost no user intervention.

Single, expanding nomenclature service: worldwide, unique nomenclature service that enables a 'Molecular Typing Esperanto'

DNA re-sequencing editor: edit and analyze reference-mapped assemblies of Ion Torrent™ data (e.g., MLST, MLST+) with auto-correction of homopolymer-related insertion/deletion errors.

Sanger data: assemble, edit, and analyze Sanger CE sequencing data (e.g., MLST).

Analytical tools: select data entries from a comparison table for epidemiologic, evolutionary, or functional analysis. Cluster and visualize data entries by using minimum spanning or UPGMA/neighbor-joining trees.

Database:
   --Store, search, retrieve, export, and create reports from your epidemiologic and DNA sequence data stored in an integrated database. Search new sequence entries against stored data.
   --Data fields are compliant with the metadata requirements of the NCBI BioSample. Enables data entry plausibility checks.

Bacterial typing: typing of bacteria is automatically performed with user-defined quality parameters (e.g., coverage, stop codons) using public or self-defined query libraries and task templates.

Ridom Community:
   --Rapidly and easily share task templates with other institutions or download them online from the Task Template 'Store'.
   --Option to contribute to a single, worldwide, expanding, publicly-available database of nomenclature and epidemiologic data. Larger (supra) national institutions may obtain their own server for epidemiologic data upon request.

Security:
   --Encryption (SSL) of data in transmission
   --Various configurable user roles, user groups, and access controls
   --Audit trail functionality (who, when and what)

Computer Specifications (Minimum)

Client computer OS: Windows® 7 64-bit, CPU: Core i5, RAM: 8 GB, HD: 500 GB, Internet connection required to use public Ridom MLST+ Nomenclature Server & Task Template 'Store' (supports working with a private and local nomenclature and to generate custom tasks).

Server computer OS: Windows® 7/Linux 64-bit (Ubuntu LTS recommended), CPU: Core i5, RAM: 8 GB (48 GB recommended if MIRA de novo assembly done on this server), HD: 2 TB (RAID level 1 or 5 recommended), it is recommended not to use the NGS machine computer as server.

Ion Reporter™ Server System (Ion Torrent™)

The Ion Reporter Server System is a combined hardware and software solution for analyzing human and bacterial sequencing data. It consists of a locally deployed computer with a suite of informatics tools that streamlines and simplifies analysis, annotation, and archiving of semiconductor sequencing data from any Ion Torrent sequencer. The Ion Reporter Server System combines the ease of use of Ion Reporter Software with the control and access of a powerful computer server in your own building. A locally deployed computer affords many benefits, such as tighter control of the hardware and software versioning. In addition, data uploads from the Torrent Server are faster when the transfer is within your own network. With your own hardware, you have access to unlimited analyses, as well as more options for integration into your lab's workflow.

Streamlined integration with Ion Torrent next-generation sequencing systems
The Ion Reporter Server System is built to complete the next-generation sequencing workflow from sequencing data to report. This platform builds on the sample processing and sequencing output from the Ion S5, Ion S5 XL, Ion PGM, and Ion Proton systems by coupling tightly with the Torrent Server for data transfer and analysis initiation. When a sequencing run is started, an Ion Reporter Software workflow can be pre-designated so the data transfer and analysis are initiated seamlessly, eliminating the hands-on time between run initiation and reviewing annotated variants, with a host of annotations added to guide understanding.

Flexible analyses with controlled pipelines
Many research applications, including applications in the areas of oncology, inherited disease, reproductive health, and 16S bacterial metagenomics, are supported within Ion Reporter Software using pre-tuned, customizable analysis workflows. These workflows can be used to analyze single samples, paired tumor/normal samples, and family trios. Detect germline or somatic SNPs, indels, gene fusions, and CNVs in a single workflow. Use algorithms designed for oncological somatic variant detection, liquid biopsy cfDNA variant detection, and others designed specifically for low-pass whole-genome copy number for aneuploidy detection and inherited disease research applications. The analysis workflows designed around targeted sequencing have been specifically developed for Ion AmpliSeq gene panels and Oncomine assays. Ion Reporter Software also includes a 16S metagenomics workflow, which enables environmental and clinical researchers interested in bacterial populations to identify and classify the relative proportions of microbes present at any taxonomic level from one or multiple mixed populations.

Each of the Ion Reporter Software workflows can be used as pre-configured or modified and then locked for controlled use without the need for an analyst or bioinformatician. Alternatively, the platform is extensible with our software APIs to drive integration with your lab environment and processes. By integrating detected variants with comprehensive public and Ion Torrent proprietary annotations and your own lab-specific content, Ion Reporter Software helps reduce your bioinformatics work and the time needed to interpret your results. The analysis modules and parameters are configurable, allowing you to customize the workflow to fit your research needs. Workflows are open for development and testing, and may be locked for repeated use in an auditable production environment when desired. These features make Ion Reporter Software an ideal solution for clinical researchers needing a simple bioinformatics tool that helps ensure consistency of results.

Workflows follow intuitive steps
The Ion Reporter Software workflow steps mirror the typical role-based sample processing workflow used by most labs. Sequencing reads from Ion S5, Ion S5 XL, Ion PGM, or Ion Proton systems are automatically imported from the Torrent Browser into the local Ion Reporter Software environment for read mapping, variant detection, multi-sample analysis, and annotation. You can then filter the identified variants based on technical criteria such as read coverage, P-value, allele frequency, and a growing set of annotations such as gene names, conservation scores, COSMIC, OMIM and other public and proprietary classifications. After you classify and interpret the variants, Ion Reporter Software displays this summary in an easily readable report alongside the relevant variants and their corresponding annotations.

Ion Reporter Software can also be used for long-term data management and access to individual files and audit logs. The computer server enables Ion Reporter Software to provide scalable analysis and control of your data and results. In addition, the software is designed to the same robust data security standards as described in the HIPAA implementation guidelines.

Services and support
Service and support plans—comprehensive plans to maximize instrument performance and ensure availability of critical systems
Training—courses for experimental design, data analysis, troubleshooting, applications, and instrument operation
Bioinformatics—tailored support for NGS informatics execution, software use, data analysis, and downstream applications
DataSafe Solution—storage and back-up strategy, design, hardware, and support for all lab data

For more information about the Ion Reporter Server System and related products, please download the Ion Reporter Server System flyer below.

MicroSEQ™ ID Microbial Identification Software Lite v3.1 Bundle (Applied Biosystems™)

MicroSEQ ID Microbial Identification Software v3.1 allows you to easily identify and classify unidentified bacterial or fungal sequences by comparing them to a validated microbial library. The Lite version of the software is for use on a stand-alone PC (not connected to the genetic analyzer) for simple analyses. This bundle includes the bacterial and fungal sequence libraries.

• A validated library of over 3000 microbial sequences helps ensure you get the answers you need
• Automatically identify unknown specimens
• The MicroSEQ system is a complete integrated solution, including security, audit, and e-signature features
• Qualification and validation support are available

Confidently identify microbes
The MicroSEQ ID sequence libraries consist of bacterial libraries of 500 bp 16S rDNA sequences and over 2300 validated entries, including extensive coverage of gram-negative non-fermenters, Bacillus, Coryneforms, Mycobacteria, and Staphylococcus, as well as a fungal library containing more than 1100 entries. To help ensure accurate identification of the species of your sequences, we rigorously validate all library entries. And unlike other widely available databases, MicroSEQ libraries contain only correctly identified organisms and quality-controlled sequences derived from type strains of preeminent culture collections. The libraries also support sequence polymorphisms, and include bacterial Category A biothreat agents.

Automatically identify unknown specimens
Reviewing each specimen in a project file to make a manual identification call can be tedious and time consuming. The Auto-ID feature in MicroSEQ ID software uses a set of editable parameters to automatically identify unknown specimens. The results table is displayed in the report, and an editable comments field allows additional information or manual identifications to be entered into the same table.

Run plates on 3500/3500xL instruments directly via the MicroSEQ ID software
Applied Biosystems 3500 Series genetic analyzer users are now able to run plates on these instruments directly via the MicroSEQ ID software v3.1 user interface, without needing Autoanalysis Manager. A single software wizard enables you to set up projects, specimens, and plates; adjust the plate layout via drag and drop; start and monitor the run; and review results.

The MicroSEQ system: A complete, integrated solution
Streamlining every step in microbial identification, the MicroSEQ system combines the advantages of MicroSEQ ID software with easy-to-use PrepMan Ultra sample preparation reagents and protocols, MicroSEQ bacterial and fungal application kits, and industry-leading thermal cyclers and sequencing systems. To help ensure optimal performance and system-wide integration, we develop and test all components of the system together. The MicroSEQ ID software also includes security, audit, and electronic signature features enabling the software to smoothly integrate into your workflow.

Qualification and validation support
To help ensure seamless integration into your laboratory, from installation to routine operation, we offer comprehensive installation and operational qualification (IQ/OQ) and validation support services.

Avadis™ NGS Software Commercial License (Applied Biosystems™)

Avadis® NGS is a desktop software platform for analysis, visualization, and management of data generated by Next-Generation Sequencing (NGS) platforms. It supports workflows for Alignment, DNA-Seq, RNA-Seq, Small RNA-Seq and ChIP-Seq analysis and is designed with the biologist in mind.

Alignment
Avadis NGS supports an inbuilt alignment algorithm called COBWeb that supports the alignment of both short and long reads with an arbitrary number of gaps and mismatches. It also includes support for paired end reads and a variety of trimming options and screening databases.

DNA-Seq
The DNA-Seq workflow in Avadis NGS supports the detection of SNPs and small Insertion and Deletions (InDels). SNPs and InDels are discovered and annotated with information from dbSNP or other sources such as BIOBASE GenomeTrax annotations. The effect of a SNP or InDel on the coding regions can be assessed to identify "NON-SYNONYMOUS-CODING SNP", "FRAMESHIFT InDel", etc. In multi-sample scenarios, one can determine significant SNPs such as High Confidence Common Variants, Low Frequency Common Mutations, etc. Larger structural variations including large insertions, deletions, translocations and inversions can be detected with paired end data.

RNA-Seq
Avadis® NGS supports the RNA-Seq workflow for the study of the transcriptome. In addition to the classical differential gene expression analysis using the normalized expression levels, Avadis® NGS Software allows for the detection of alternatively spliced transcripts as well and provides a unique visualization of the spliced transcripts with the special gene view. Both known and novel splice variants can be discovered and there is functionality to discover complete new genes and transcripts as well as gene fusion products.

Small RNA-Seq
The Small RNA-Seq workflow in Avadis® NGS supports quantification of small RNA data including miRNA, tRNA, snRNA and snoRNA. Novel small RNA genes can also be detected and analyzed. It supports the ability to perform differential gene expression analysis for both known and novel genes for different experimental setups. Additionally, for miRNA genes, a variety of target enrichment databases are supported. The identified targets can be further analyzed with the Gene Ontology and Pathway Analysis tools.

ChIP-Seq
The ChIP-Seq experiment workflow in Avadis® NGS Software allows for the detection of peak regions in the genome using a variety of peak-finding algorithms such as PICS and MACS. For transcription factors the motif-detection algorithm GADEM can be used to identify potential motifs at these binding sites. The genes regulated by those transcription factors can be further analyzed using biological interpretation steps.

More details about Avadis® NGS can be found at http://www.avadis-ngs.com/

Partek® Flow® Lab Edition Software, 12 Month License (Academic) (Ion Torrent™)

Partek® Flow® Lab Edition provides small labs and departments the tools needed to store, manage, and collaboratively analyze large genomic data sets. Whether a cloud, cluster, or server deployment, it provides the computing resources and flexibility to scale with ever-changing needs.

MicroSEQ™ ID Microbial Identification Software v3.1 Bundle (Applied Biosystems™)

MicroSEQ ID Microbial Identification Software v3.1 allows you to easily identify and classify unidentified bacterial or fungal sequences by comparing them to a validated microbial library. This bundle includes the bacterial and fungal sequence libraries.

• A validated library of over 3000 microbial sequences helps ensure you get the answers you need
• Automatically identify unknown specimens
• Run plates on Applied Biosystems 3500 Series genetic analyzers directly via the MicroSEQ ID software
• The MicroSEQ system is a complete integrated solution, including security, audit, and e-signature features
• Qualification and validation support are available

Confidently identify microbes
The MicroSEQ ID sequence libraries consist of bacterial libraries of 500 bp 16S rDNA sequences and approximately 9300 validated entries, including extensive coverage of gram-negative non-fermenters, Bacillus, Coryneforms, Mycobacteria, and Staphylococcus, as well as a fungal library containing more than 1300 entries. To help ensure accurate identification of the species of your sequences, we rigorously validate all library entries. And unlike other widely available databases, MicroSEQ libraries contain only correctly identified organisms and quality-controlled sequences derived from type strains of preeminent culture collections. The libraries also support sequence polymorphisms, and include bacterial Category A biothreat agents.

Automatically identify unknown specimens
Reviewing each specimen in a project file to make a manual identification call can be tedious and time consuming. The Auto-ID feature in MicroSEQ ID software uses a set of editable parameters to automatically identify unknown specimens. The results table is displayed in the report, and an editable comments field allows additional information or manual identifications to be entered into the same table.

Run plates on 3500/3500xL instruments directly via the MicroSEQ ID software
Applied Biosystems 3500 Series genetic analyzer users are now able to run plates on these instruments directly via the MicroSEQ ID software v3.1 user interface, without needing Autoanalysis Manager. A single software wizard enables you to set up projects, specimens, and plates; adjust the plate layout via drag and drop; start and monitor the run; and review results.

The MicroSEQ system: A complete, integrated solution
Streamlining every step in microbial identification, the MicroSEQ system combines the advantages of MicroSEQ ID software with easy-to-use PrepMan Ultra sample preparation reagents and protocols, MicroSEQ bacterial and fungal application kits, and industry-leading thermal cyclers and sequencing systems. To help ensure optimal performance and system-wide integration, we develop and test all components of the system together. The MicroSEQ ID software also includes security, audit, and electronic signature features enabling the software to smoothly integrate into your workflow.

Qualification and validation support
To help ensure seamless integration into your laboratory, from installation to routine operation, we offer comprehensive installation and operational qualification (IQ/OQ) and validation support services.

Ridom™ SeqSphere+ Software for Ion Torrent™ Systems (Commercial) (Ion Torrent™)

SeqSphere+ Software from Ridom allows for automatic processing and analyzing of microbial sequence data obtained from Ion Torrent™ systems. SeqSphere+ Software enables whole genome microbial typing (MLST+) or traditional MLST sequencing projects. This software is designed both for individual labs and for distributed work-groups (client/server model) to enable easy data sharing. License options are available for 1, 3, or 5 years; 2 or 5 seats; and commercial or academic/government labs.

Ridom SeqSphere+ Software Features:

User-friendly: no scripting skills or bioinformatician needed

Highly automated workflow: download a pre-designed task template or create a custom template, then apply it to the analysis of hundreds of strains with almost no user intervention.

Single, expanding nomenclature service: worldwide, unique nomenclature service that enables a 'Molecular Typing Esperanto'

DNA re-sequencing editor: edit and analyze reference-mapped assemblies of Ion Torrent™ data (e.g., MLST, MLST+) with auto-correction of homopolymer-related insertion/deletion errors.

Sanger data: assemble, edit, and analyze Sanger CE sequencing data (e.g., MLST).

Analytical tools: select data entries from a comparison table for epidemiologic, evolutionary, or functional analysis. Cluster and visualize data entries by using minimum spanning or UPGMA/neighbor-joining trees.

Database:
   --Store, search, retrieve, export, and create reports from your epidemiologic and DNA sequence data stored in an integrated database. Search new sequence entries against stored data.
   --Data fields are compliant with the metadata requirements of the NCBI BioSample. Enables data entry plausibility checks.

Bacterial typing: typing of bacteria is automatically performed with user-defined quality parameters (e.g., coverage, stop codons) using public or self-defined query libraries and task templates.

Ridom Community:
   --Rapidly and easily share task templates with other institutions or download them online from the Task Template 'Store'.
   --Option to contribute to a single, worldwide, expanding, publicly-available database of nomenclature and epidemiologic data. Larger (supra) national institutions may obtain their own server for epidemiologic data upon request.

Security:
   --Encryption (SSL) of data in transmission
   --Various configurable user roles, user groups, and access controls
   --Audit trail functionality (who, when and what)

Computer Specifications (Minimum)

Client computer OS: Windows® 7 64-bit, CPU: Core i5, RAM: 8 GB, HD: 500 GB, Internet connection required to use public Ridom MLST+ Nomenclature Server & Task Template 'Store' (supports working with a private and local nomenclature and to generate custom tasks).

Server computer OS: Windows® 7/Linux 64-bit (Ubuntu LTS recommended), CPU: Core i5, RAM: 8 GB (48 GB recommended if MIRA de novo assembly done on this server), HD: 2 TB (RAID level 1 or 5 recommended), it is recommended not to use the NGS machine computer as server.

MicrobeBridge™ Software (Applied Biosystems™)

MicrobeBridge™ software is a desktop software solution that connects .ab1 data files generated on Applied Biosystems™ Sanger sequencers with the Centers for Disease Control and Prevention (CDC)’s MicrobeNet™ database for bacterial identification using 16S rRNA gene sequencing analysis.

Download a free copy of the software >

MicrobeNet is a web-based tool, built by the CDC, for the identification of microbial pathogens through 16S rRNA gene sequence BLAST searches. It contains a highly curated database of genetic and phenotypic properties for the identification of bacterial and microbial species.

Current workflows require manual quality checks of sequence data assembly, manual examination of the assembled sequence, and a manual alignment search against Genbank to identify the species. MicrobeBridge software provides a streamlined workflow starting with importing .ab1 data files generated on any Applied Biosystems capillary electrophoresis sequencing instrument. The software performs contig assembly, contig editing, primer trimming, data quality check, as well as copies the contig sequence and provides a one-click connection to MicrobeNet.

Features
• Overview of read coverage shows the range of forward and reverse sequences in a specimen.
• Contig review shows the forward and reverse sequences, identifies discrepancies in the assembled contig sequence, and allows editing of the contig sequence.
• Quality status displays color-coded trace files based on user-settable quality ranges and provides thumbnail trace views to examine raw data.
• One-click access to MicrobeNet provides one-click copy contig sequence function.
• Export contig file allows export of contig file in FASTA format.

Seamlessly connects Sanger results to the CDC
The software seamlessly connects Sanger sequencing data to the CDC MicrobeNet reference database, allowing researchers to identify microbes and other pathogens in one database. It automates the process of compiling raw sequence data for matching against known pathogenic sequences in MicrobeNet.

System requirements
• Minimum 1.8 GHz processor, 2 GB RAM, and 20GB of free hard disk space
• Software has been tested on Windows 10 Professional and Windows 7 32-bit/64-bit SP1

View the Release Notes (PDF) >

DNASTAR™ Lasergene Genomics Suite Software Academic License (Ion Torrent™)

The DNASTAR® Lasergene® Genomics Suite provides all of the software you need for next-generation sequence assembly and analysis in a single, integrated package. Our software uses a proprietary algorithm to quickly and accurately assemble a genome of any size using a reference on a desktop computer, and includes a comprehensive suite of post-assembly analysis tools, including SNP detection and analysis, evaluation of coverage, consensus annotation, and more.

With DNASTAR® Lasergene® Genomics Suite Software You Get:

• SeqMan® NGen® software for next-generation sequence assembly, Lasergene® Core Suite for post-assembly analysis, ArrayStar® software for large-scale, multi-sample SNP analysis, and QSeq® software for ChIP-Seq, RNA-Seq and miRNA analysis
• Additional tools for quickly and accurately assembling genomes of any size using a reference on a desktop computer
• Support for most project types, including de novo and reference-guided assemblies, Ion AmpliSeq™ Cancer Panel projects, whole genome/whole exome validation, and more
• Support for Ion Torrent™ barcoded data, Ion Torrent™ mate pair and paired-end sequence data, with significantly enhanced variant call accuracy
• Automatically optimized assembly parameter settings
• An easy-to-use interface
• Compatibility with Windows®, Macintosh®, and Linux® operating systems
• A one-year license to use the software

Powerful Software To Use With the Ion Torrent™ Personal Genome Machine™ Sequencer
The DNASTAR® Lasergene® Genomics Suite automatically optimizes assembly parameters based on the Ion Torrent™ system's sequence characteristics and your specific project objective, such as targeted resequencing, assembly of a small genome, or transcriptome assembly. You can easily adjust the parameters with the user-friendly interface.

Versatile Tools for the Analysis of Sequence Data
After completing the assembly, your analysis is facilitated by numerous tools included with the software, such as a dynamic method for evaluating SNPs, reports for identifying large insertions and deletions, multiple options for automatically annotating your consensus sequence with existing or new features, the ability to design primers for regions of low coverage, the creation of high-quality images of your annotated consensus, and more.

The DNASTAR® Lasergene® Genomics Suite is compatible with Windows®, Macintosh®, and Linux® desktop computers having as little as 16 GB RAM.

This license is for academic users. A commercial license (4462914C) is also available.

For Research Use Only. Not intended for any animal or human therapeutic or diagnostic use.

MicroSEQ™ ID 16S rDNA Full Gene Library v2.0 (Applied Biosystems™)

The MicroSEQ® ID 16S rDNA Full Gene Library v2.0 is designed for installation with the MicroSEQ® ID analysis software. It contains the complete 16S sequence from bacterial organisms that can be compared to an unknown bacterial sequence using MicroSEQ® ID analysis software to identify bacteria.

MicroSEQ® ID Analysis Software enables you to identify and classify unidentified bacterial or fungal sequences by comparing them to a validated microbial library.
• A validated library of over 2300 microbial sequences ensures you get the answers you need.
• Easy-to-use interface and optimized search algorithms enable quick results.
• Phylogenetic trees provide a deeper understanding of your unknowns.
• Security features support 21 CFR Part 11 compliance, enabling the software to integrate smoothly into your workflow.

Confidently Identify Microbes
The MicroSEQ® system comprises bacterial libraries of 500 bp sequences and of over 1,400 validated entries--including extensive coverage of gram-negative nonfermenters, Bacillus, Coryneforms, Mycobacteria, and Staphylococcus. Another library containing more than 900 entries is available for fungal identification. To ensure you can accurately identify the species of your sequences, we rigorously validate all library entries. And unlike other widely available databases, MicroSEQ libraries contain only correctly identified organisms and quality-controlled sequences derived from type strains of preeminent culture collections. The libraries also support sequence polymorphisms, and include bacterial Category A biothreat agents.

Flexible and Easy-to-Use
To simplify microbial sequence identification, analysis, and reporting, MicroSEQ ID Analysis Software provides easy-to-use wizards and a powerful, automated toolset. The software also includes a full complement of audit-trail and security features that support 21 CFR Part 11 compliance. Further, this flexible software even allows you to create customized entries for specific sequences from new or proprietary strains.

The MicroSEQ® System: A Complete, Integrated Solution
Streamlining every step in microbial identification, Applied Biosystems MicroSEQ System combines the advantages of MicroSEQ ID Software with easy PrepMan Ultra sample preparation reagents and protocols, MicroSEQ bacterial and fungal application kits, and industry-leading thermal cyclers and sequencing systems. To ensure optimal performance and system-wide integration, we develop and test all components of the system together.

For Research Use Only. Not for use in diagnostics procedures.

3500/3500xL Data Collection Software, v3.3

This product is a software upgrade package. It includes a 3500/3500xL Data Collection Software upgrade CD for upgrade from v3 or v3.1 to v3.3.

Data Collection Software v3.3 provides the features and functionality that researchers have been requesting to take their research even further. Powered by the Windows™ 10 operating system, our newest and most powerful data collection software provides:

• Options to enable/disable consumable hard stop warnings
• Option to enable/disable consumable hard stops for administrator
• Signal Optimization Factor parameter added to spatial calibration
• Bi-weekly maintenance option added to Scheduler
• Ability to export consumable logs
• Ability to export injection list
• Ability to load another plate and re-order priorities after run is paused
• Added run pause confirmation dialog
• Support to load additional plate and re-order injections after run is paused
• Ability to enable/disable off-scale recovery and pull-up reduction

Additional features include:
• Support for Windows 10, 64 bit
• Security—built-in SAE feature set assists in meeting more stringent requirements
• Ability to upload sample files to Connect cloud platform in non-SAE mode