SoftGenetics’ mission is to provide researchers and clinicians with effective, biologist friendly, easy-to-use software analysis tools to meet the ever changing needs of today’s genetic researcher and diagnostician. We know our success is totally dependent upon our ability to meet the evolving needs of the user community. All of our software tools are the result of close, effective collaborations with the genetic community. So if one of our software programs doesn’t meet your exact needs, please do not hesitate to contact us.

Mutation Surveyor® Sequence analysis and assembly software… utilizes our patent pending physical trace comparison technology which provides accuracy >99% when using bi-directional Phred 20 quality sequence traces. The software is an excellent tool for both discovery and diagnostic applications, and accepts sequence traces from all major sequencing systems such as those marketed by Applied BioSystems, Foster City CA, Beckman Coulter or MegaBACE systems, and is compatible with either terminator or primer chemistries. The software’s unique technology provides the best tool for locating all DNA variants: Homozygote, Heterozygote, Indels and heterozygote insertions or deletions.

SoftGenetics’ NextGENe software, is a unique program for analyzing “Next Generation” Sequencing data, generated by all of the new platforms.  

NextGENe’s "Biologist Friendly" user interface combined with its speed and unique algorithms allows analysis on low-cost 64 bit hardware.  NextGENe’s simplicity and powerful algorithms backed by SoftGenetics world class technical support nearly eliminates the need for additional bioinformatics resources. 

Our Condensation Tool™ with its patent pending technology solves the 3 critical issues of 2nd Generation Sequence Analysis, short reads, high error rate and data volume. SNP detection accuracy with 50x coverage of a diploid individual is 99.9%, SNP detection of pooled or somatic cancer samples has been shown to be 99% at a 2% SNP concentration.

NextGENe is a software suite designed to allow biologists to easily analyze the vast amount of data generated by “Next Generation” Sequencing systems, NextGENe provides an intuitive Windows® user interface and a host of applications.

SoftGenetics joins Applied Biosystems SOLiD™ Software Development Community. Read more.

GeneMarker® the “Biologist Friendly” genotyping software… is an excellent replacement for GeneScan®/GenoTyper® or an easy-to-use alternative to GeneMapper®. GeneMarker’s basic operation is simple, fast and accurate. GeneMarker is compatible with all major electrophoresis systems including Applied Biosytems PRISM™ Genetic Analyzer, MegaBACE™, Beckman-Coulter and SpectruMedix systems. When used in combination with JelMarker™ GeneMarker is an excellent choice for analysis of any gel image from systems such as the LI-Cor® 4300 DNA analyzer or Kodak Image Station 4000R.

GeneMarker®HID STR Human Identity Software meets expert system requirements… making it an excellent replacement or alternative to GeneScan/Genotyper or GeneMapperID. Collaborator comparison studies have indicated analysis time savings of over 40% in comparison to GeneMapperID. Developed in collaboration with the Pennsylvania State University Forensic Science program GeneMarkerHID is an excellent tool for casework, Mixture Analysis, paternity and all other human identity applications such as stem cell research and identification.

JelMarker™ image reading and conversion software…was developed in response to a growing demand for software that can analyze fluorescence, chemiluminescence and autoradiography gel image files – especially those from LI-COR’s 4300 DNA Analyzer and KODAK’s Image Station 4000R.

JelMarker™ is a simple, stand-alone image reading software providing highly accurate lane and band recognition. Easy-to Use, modern Windows technology permits rapid point and click modification to lane and band positions.

CGH Explorer™ Comparative Genome Hybridization software… utilizes genomic DNA from both reference and test genome that are labeled with fluorescent dyes. The genomic samples competitively hybridize with an array of probes arranged on a substrate. The hybridized slide can be scanned evaluating the signal intensity ratio for the two dyes to determine the copy number for each DNA segment. The majority of microarray platforms use short DNA fragments (25– 75 base pairs), oligonucleotides, or larger BAC clones of about 100 kbp. Along with the arrays covering chromosome specific regions, there are genome wide arrays used for quick assessment of losses and gains in larger regions. In addition, cDNA arrays, originally designed for gene expression profiling, are used to evaluate the number of copies in coding regions.

CGH Explorer™ is an easy-to-use software tool for analyzing two color copy number alteration arrays from multiple platforms, including AgilentTechnologies, Illumina, AffyMetrix, NimbleGen, BioRobotics, Combimetrix and others.

The software performs raw image analysis and gridding eliminating image biases to significantly improving analysis accuracy. Simple, user-friendly interface and automation features speed analysis providing final results within a few mouse clicks.