1937 days ago
Osprey: Network Visualization System
...he visualization of complex biological interaction networks. Osprey builds data-rich graphical representations from Gene Ontology (GO) annotated interaction data maintained b...1928 days ago
Roary: the Pan Genome Pipeline
Roary is a high speed stand alone pan genome pipeline, which takes annotated assemblies in GFF3 format (produced by Prokka (Seemann, 2014)) and calculates the pan genome. Using a stand...1926 days ago
Phytozome v12.1: plant science community hub for accessing palnts genomic data
...ed elsewhere. As of release v12.1.6, Phytozome hosts 93 assembled and annotated genomes, from 82 Viridiplanta...More than half of these genomes have been sequenced, assembled and/or annotated with JGI Plant Science progra...1506 days ago
ShinyGO v0.61: Gene Ontology Enrichment Analysis + more
...ion from Ensembl (Release 96), Ensembl plants (R. 43) and Ensembl Metazoa (R. 43). An additional 2031 genomes (including bacteria and fungi) are annotated based on STRING-db (v.10). In...1428 days ago
PhiSpy: PhiSpy identifies prophages in Bacterial (and probably Archaeal) genomes
PhiSpy identifies prophages in Bacterial (and probably Archaeal) genomes. Given an annotated genome it will use several approaches to identify the most likely prophage regions. Initia...1401 days ago
GEnView: A phylogeny based comparative genomics software to analyze the genetic environment of genes
...gene. Alternatively, custom genomes can be provided. User selected stretches (20kbp by default) of the genes genetic environment are extracted, annotated and aligned between all genom...855 days ago
Orthoflow: workflow for phylogenetic inference of genome-scale datasets of protein-coding genes
...of genome-scale datasets of protein-coding genes. Our goal was to make it straightforward to work from a combination of input sources including annotated contigs in Genbank format and...70 days ago