Geneious
Geneious Prime makes bioinformatics accessible by transforming raw data into visualizations that make sequence analysis intuitive and user-friendly. Simple sequence assembly and easy editing of contigs. Automatic annotation for gene prediction, motifs, translation, and variant calling. Genotype microsatellite traces with automated ladder fitting and peak calling and generates tables of alleles. Beautiful visualizations of annotated genomes and assemblies are displayed in a highly customizable sequence view. Powerful SNP variants analysis, simple RNA-Seq expression analysis, and amplicon metagenomics. Design and test PCR and sequencing primers and create your own searchable primer database.
Geneious Biologics is a flexible, scalable, and secure way to streamline your antibody analysis workflows, create high-quality libraries and select the optimal therapeutic candidates.
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OmnibusX
In the world of biological data science, navigating vast and complex datasets can be a daunting task. Our software toolkit is designed to empower you by accelerating analysis, promoting accessibility, and providing comprehensive visualization tools to help you make sense of these intricate biological datasets.
Our platform is built with data accessibility at its core. With just a few clicks, you can gain seamless access to extensive, high-dimensional biological datasets, including bulk RNA-seq, single-cell RNA-seq, scATAC-seq, spatial RNA-seq, and metagenome-seq. This allows you to focus less on data wrangling and more on analysis and discovery.
Our integrated standard processing pipeline includes the latest tools for standard data processing. From normalization and batch correction to PCA, t-SNE, UMAP, clustering, cell type prediction, TCR/BCR, genome browser, and beyond, our pipeline is designed to streamline your workflow and provide you with reliable, reproducible results.
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Nygen
Nygen is a cloud-based single-cell RNA-seq (scRNA-seq) and multi-omics data analysis and discovery platform designed to let researchers upload, explore, visualize, analyze and interpret complex cellular datasets with an intuitive, no-code interface that supports drag-and-drop workflows and advanced scientific analysis without requiring programming expertise; it combines Nygen Analytics for rapid, reproducible scRNA-seq exploration with collaborative dashboards and publication-ready outputs, Nygen Database for accessing and hosting curated single-cell datasets to accelerate research and comparative studies, and Nygen Insights, an AI-augmented tool that delivers highly accurate cell annotations, in-depth disease impact analysis and tailored biological insights; it supports a wide range of data formats, integrates public data, enables secure cloud-based collaboration, and provides features like literature-linked evidence and biomarker-focused analyses.
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Genome Analysis Toolkit (GATK)
Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size. The GATK is the industry standard for identifying SNPs and indels in germline DNA and RNAseq data. Its scope is now expanding to include somatic short variant calling and to tackle copy number (CNV) and structural variation (SV). In addition to the variant callers themselves, the GATK also includes many utilities to perform related tasks such as processing and quality control of high-throughput sequencing data and bundles the popular Picard toolkit. These tools were primarily designed to process exomes and whole genomes generated with Illumina sequencing technology, but they can be adapted to handle a variety of other technologies and experimental designs.
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