This year, the Persephone team enjoyed a great amount of attention at the Plant and Animal Genome conference in San Diego, both in our two workshop presentations as well as at the exhibition. At our exhibit booth, we've had the opportunity...
The International Weed Genomics Consortium (IWGC) provides a platform for private and public collaboration to develop genomic tools and resources and to stimulate global research in weed biology and management. With their help, we picked 14 most popular weed genomes...
Our collection of coffee genomes has got another entry: Coffea canephora (DH200-94). All four coffee genomes are cross-linked by using the ortholog gene pairs. Chromosome 1 for four Coffea genomes: C. humblotiana, C. eugenioides, C. canehora, and C. arabica. The...
For each aligned NGS read, we have added a detailed view. If you click the read on a BAM/CRAM track, you will see the form with various properties of the read including the details of the mapping, the base qualities...
We are pleased to announce that The Kazusa DNA Research Institute has licensed Persephone. Our tool will be used at the Institute to provide services such as genome analysis of cultivated plants and related microorganisms, and development of practical technology...
A new work called "Chromosome-scale assembly of the wild wheat relative Aegilops umbellulata" has been published in Nature. The data for the genome of Aegilops umbellulata is hosted at the Persephone web portal. Two of our colleagues (Maxim Troukhan and Maksym...
Minimap2 Our next major feature upgrade of Persephone includes interesting new functions. First of all, we integrated minimap2 - a popular alignment tool that, besides aligning short reads, can be used for sequence comparisons on the scale of full chromosomes. As you...
Our community is growing! Cornell University's School of Integrative Plant Science licensed Persephone. Our new customer uses genomic tools to better understand hybrid vigor, sex determination and pest and disease resistance in shrub willow bioenergy crops. More recently, they have initiated...
The Persephone software stack includes the database, mono (to run .NET binaries on linux), the main server WebCerberus, the loader PersephoneShell and Apache Solr text search engine. Each component can be installed and tuned separately, which in detail is described...
We have added three genomes of Echinochloa grasses. These are weeds known by the common names barnyard grass or corn panic grass. In particular, the species are: Echinochloa oryzicola (late barnyard grass), Echinochloa crusgalli (cockspur (or cockspur grass), barnyard millet, Japanese millet, water grass, common barnyard grass) and Echinochloa...