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 insert...2491 days ago
2379 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 assign...2379 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 di...onologicaly along evolutionary time. Once a query gene has been entered, it is displ...cture in all the ancestral species within the phylogenetic ran...2375 days ago
CHSMiner: a GUI tool to identify chromosomal homologous segments
Background The identification of chromosomal homologous segments (CHS) within and...insertion/deletion and inversion could cause the degeneration of CHSs. Results...oftware CHSMiner that detects CHSs based on shared gene conten...2375 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...complete representation of the features of the genome and correctly assembles gene casset...2364 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 conduc...e assembly & comparative genomics, variant identification & analysis, gene expres...2364 days ago
2364 days ago
phyloXML: XML for evolutionary biology and comparative genomics
...p;XML language designed to describe phylogenetic trees (or networks) and as...used features, such as taxonomic information, gene names and identifiers, branch lengths, support values, and gene duplication and speciation events. Using...2364 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 struct...2337 days ago