NextGENe

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Next Generation Sequencing Software</h1> <p class="product-intro">NextGENe software is the perfect analytical partner for the analysis of desktop sequencing data produced by Illumina® iSeq, Miniseq, MiSeq, NextSeq, HiSeq, and NovaSeq systems, Ion Torrent Ion GeneStudio S5, PGM, and Proton systems as well as other platforms.</p> <p>NextGENe software runs on a Windows® Operating System, which provides a biologist-friendly ‘point & click’ interface. It does not require scripting or other bioinformatics support, which are often required when using programs such as CLC Genomics Workbench, Lasergene's SeqMan Pro, as well as academic software such as MAQ & SOAP, Top Hat, BWA & Bowtie.</p> <div class="download-trial"> <div class="row download-trial-R"> <div class="col-4 text-center my-auto"> <a class="default-btn btn-bg-two border-radius-50" href="/information/request-trial/">Free 35-day Trial <img src="data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABgAAAAYCAYAAADgdz34AAAAAXNSR0IArs4c6QAAAMZJREFUSEvtlE0KwjAQhb/eQXDvpndQ0OuI24I3EfeCBxHEMwh6AGnBK2gHKkTEzA8WN802yXx5b96koOdV9FyfAaA6HLFoDeyAm1od3D1YARvgAswtEK+CMXBqFUyAKzAFmpwSL0BqpZBzp+QrJAJ4QQ5ACWQhUYBARsBRg+QAD0tKkjOiZAbc03u/Bkiy3vrxV4tyDpn8lwIRBRJTU4IiANcMRADLdtC2XfYXQK0lLWJRBewt/1BEgfbgj/2IAhdkAKh2PQESzCgZeI9igwAAAABJRU5ErkJggg=="/></a> </div> <div class="col-8 my-auto"> <p class="download-trial-txt">Experience the full potential of <strong>NextGENe</strong> with a free 35-day trial, and explore our <a href="/PDF/SoftGenetics-GeneticAnalysisPortfolio.pdf" target="blank">complete suite of genetic analysis solutions</a> designed to support your research needs.</p> </div> </div> </div> <p class="product-mid-weight">NextGENe software employs unique platform-specific technologies in one free-standing multi-application package. NextGENe software contains analysis modules for:</p> <ul> <li>SNP/Indel detection <ul> <li>Germline</li> <li>Somatic</li> <li>Exome Capture, Whole Exome Sequencing (WES)</li> <li>Whole Genome Sequencing (WGS)</li> </ul> </li> <li>Structural Variant Analysis (including fusion gene detection)</li> <li>Family-based and Trio comparisons</li> <li>Tumor-normal comparisons</li> <li>Copy Number Variation (CNV) detection and alternative to MLPA-like screening</li> <li>de novo assembly</li> <li>Transcriptome; Alternative Splicing Analysis & Transcript Expression levels</li> <li>ChIP-Seq, Digital Gene Expression (DGE), miRNA Analysis & Quantification & Metagenomicss</li> </ul> <p>NextGENe software is designed in a biologist friendly Windows® environment significantly reducing the need for additional bioinformatics resources and costs. NextGENe software utilizes low cost 64-bit Windows OS based hardware. (<a href="/information/specs/">Click here for suggested hardware configuration</a>)</p> <hr class="productHR"> <p><strong>Read Articles:</strong></p> <ul class="articles"> <li class="read"><a href="/PDF/Assessment_NGS_detection_%20mutations.pdf" target="_blank">Assessment of clinical analytical sensitivity and specificity of next-generation sequencing for detection of simple and complex mutations.</a></li> <li class="read"><a href="http://onlinelibrary.wiley.com/doi/10.1002/humu.22332/abstract" target="_blank">Targeted Next-Generation Sequencing can Replace Sanger Sequencing in Clinical Diagnostics.</a></li> <li class="read"><a href="http://www.ncbi.nlm.nih.gov/pubmed/23942203" target="_blank">Streamlined Ion Torrent PGM-based diagnostics: BRCA1 and BRCA2 genes as a model.</a><a href="http://www.ncbi.nlm.nih.gov/pubmed/23942203" target="_blank"></a></li> <li class="read"><a href="http://www.sciencedirect.com/science/article/pii/S0009898114001521" target="_blank">Evaluation of a new NGS method based on a custom AmpliSeq library and Ion Torrent PGM sequencing for the fast detection of genetic variations in cardiomyopathies.</a></li> </ul> <p><strong>Reference Material:</strong></p> <ul class="articles"> <li class="read"><a href="/PDF/NextGENe_UsersManual_web.pdf" target="_blank">NextGENe User Manual</a></li> <li class="read"><a href="/products/nextgene/annotated-reference-genomes/">Annotated Reference Genomes</a></li> </ul> </div>  <div class="col-xl-4 col-lg-4 col-md-12 col-sm-12 col-12 pt-10"> <div class="sidebar-menu"> <div class="sidebar-header"> Alignment and Variant Calling </div> <div class="sidebar-items"> <ul class="sidebar-ul"> <li class="sidebar-li"><a href="/products/nextgene/snp-indel-detection-of-ngs-reads/">SNP/Indel Detection of NGS Reads</a></li> <li class="sidebar-li"><a href="/products/nextgene/whole-genome-alignment/">Whole Genome Alignment</a></li> <li class="sidebar-li"><a href="/products/nextgene/snp-and-indel-discovery-with-ion-torrent-data/">SNP & Indel Discovery with Ion Torrent Data</a></li> <li class="sidebar-li"><a href="/products/nextgene/targeted-resequencing/">Targeted Resequencing</a></li> <li class="sidebar-li"><a href="/products/nextgene/structural-variations/">Structural Variations (Gene Fusions)</a></li> <li class="sidebar-li"><a href="/products/nextgene/nebnext-direct-analysis/">NEBNext Direct Analysis using Unique Molecular Identifiers (UMIs)</a></li> <li class="sidebar-li"><a href="/products/nextgene/fluidigm-advanta-solid-tumor-and-rna-fusion-panels/">Fluidigm Advanta Solid Tumor and RNA Fusion Panels</a></li> <li class="sidebar-li"><a href="/products/nextgene/cnv-analysis/">Copy Number Variation (CNV) Analysis</a></li> <li class="sidebar-li"><a href="/products/nextgene/cnv-tool/">Copy Number Variation Tool</a></li> <li class="sidebar-li"><a href="/products/nextgene/ngs-replacement-for-mlpa/">NGS Replacement for MLPA® with Batch CNV Tool</a></li> <li class="sidebar-li last"><a href="/products/nextgene/sad-tool/">Sensitive Aneuploidy Detection (SAD™) Tool</a></li> </ul> </div> </div> <div class="sidebar-menu"> <div class="sidebar-header"> RNA-Seq </div> <div class="sidebar-items"> <ul class="sidebar-ul"> <li class="sidebar-li"><a href="/products/nextgene/differential-gene-expression/">Differential Gene Expression with Pathway Studio</a></li> <li class="sidebar-li"><a href="/products/nextgene/specialized-rna-seq-analysis-tools/">Specialized RNA-Seq Analysis Tools</a></li> <li class="sidebar-li last"><a href="/products/nextgene/expression-analysis/">Expression Analysis</a></li> </ul> </div> </div> <div class="sidebar-menu"> <div class="sidebar-header"> Other Applications </div> <div class="sidebar-items"> <ul class="sidebar-ul"> <li class="sidebar-li"><a href="/products/nextgene/de-novo-assembly/"><em>de novo</em> Assembly</a></li> <li class="sidebar-li"><a href="/products/nextgene/hla-analysis/">HLA Analysis</a></li> <li class="sidebar-li last"><a href="/products/nextgene/nist-giab-validation-pipeline/">NIST GIAB Validation Pipeline</a></li> </ul> </div> </div> <div class="sidebar-menu"> <div class="sidebar-header"> Features </div> <div class="sidebar-items"> <ul class="sidebar-ul"> <li class="sidebar-li last"><a href="/products/nextgene/nextgene-autorun-automation-pipeline/">NextGENe AutoRun Automation Pipeline</a></li> </ul> </div> </div> <div class="sidebar-menu"> <div class="sidebar-header"> Sample Comparison Tools </div> <div class="sidebar-items"> <ul class="sidebar-ul"> <li class="sidebar-li"><a href="/products/nextgene/somatic-mutation-analysis/">Somatic Mutation Analysis from Whole Exome Sequencing Data</a></li> <li class="sidebar-li"><a href="/products/nextgene/family-trio-and-multi-sample-variant-comparison/">Family/Trio and Multi-Sample Variant Comparison</a></li> <li class="sidebar-li last"><a href="/products/nextgene/prediction-and-rare-disease-discovery/">Prediction 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