MGRA: Breakpoint graphs and ancestral genome reconstructions
MGRA (Multiple Genome Rearrangements and Ancestors) is a tool for recons...f genomes represented as sequences of genes (or synteny blocks) and prod...mes at the internal nodes of the phylogenetic tree. The phylogenetic tr...erest. Since version 2 MGRA supports gene inser...2499 days ago
2387 days ago
DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication
We developed a prokaryotic genome annotation pipeline, DFAST, that also supports genome submission to...rial genome within 10 minutes, with rich information such as pseudogenes, translation exceptions, and orthologous gene assig...2387 days ago
Genomicus: genome browser that enables users to navigate in genomes in several dimensions
Genomicus is a genome browser that enables users to navigate in genomes in several dim...ronologicaly along evolutionary time. Once a query gene has been entered, it is displ...ucture in all the ancestral species within the phylogenetic ra...2383 days ago
CHSMiner: a GUI tool to identify chromosomal homologous segments
Background The identification of chromosomal homologous segments (CHS) within and b...insertion/deletion and inversion could cause the degeneration of CHSs. Results...software CHSMiner that detects CHSs based on shared gene conte...2383 days ago
Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome
Monitoring the progress of DNA molecules through a membrane pore has been postulated as a method for sequencing D...complete representation of the features of the genome and correctly assembles gene casse...2372 days ago
Computational Genomics: Applied Comparative Genomics
The primary goal of the course is for students to be grounded in theory and leave the course empowered to conduct...me assembly & comparative genomics, variant identification & analysis, gene expre...2372 days ago
2372 days ago
phyloXML: XML for evolutionary biology and comparative genomics
phyloXML (example) is an XML language designed to describe phylogenetic trees (or networks) and associated data. PhyloXML provides elements for commonly used features, such as taxonomic information, gene names...2372 days ago
PASA: Gene Structure Annotation and Analysis
PASA, acronym for Program to Assemble Spliced Alignments, is a eukaryotic genome annotation tool that ex...d alignments of expressed transcript sequences to automatically model gene structures, and to maintain gene struc...2345 days ago