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 us...1612 days ago
LibsDyogen: Libibrary for comparative genomics
Library of usual classes and functions written in python and used in the Dyogen team for comparative genomics applications. Collaborative python library used in the DYOGEN teamfor studying the evolution of gene order in vertebrates. http://www.ibens.ens.fr/?rubrique43&lang=fr1595 days ago
Π-cyc: A Reference-free SNP Discovery Application using Parallel Graph Search
Reference free SNP search for comparative population genomics: multiple samples run simultanously. **experimental phase, compiles and runs with OpenMPI-1.8.8 with Intel Compiler only C...1561 days ago
JCVI:Python utility libraries on genome assembly, annotation and comparative genomics
Collection of Python libraries to parse bioinformatics files, or perform computation related to assembly, annotation, and comparative genomics. https://github.com/tanghaibao/jcvi More at https://github.com/tanghaibao/jcvi/wiki1512 days ago
Phytozome v12.1: plant science community hub for accessing palnts genomic data
Phytozome, the Plant Comparative Genomics portal of the Department of Energy's Joint Genome Institute,...annotation and analyses, Phytozome facilitates accurate and insightful comparative genomics studies.1512 days ago
Mercator: Multiple Whole-Genome Orthology Map Construction
...regions within each genome and hypothetical ancestral genome. Maps listing these relationships are extremely valuable to researchers performing comparative analyses of genomic sequence....1449 days ago
Predict Gene Ontology with sequences !
...tamination. http://ekhidna2.biocenter.helsinki.fi/sanspanz/ IterPro is for the beginners https://www.ebi.ac.uk/interpro/ You can find other comparative info at https://academic...1399 days ago
PyParanoid: a pipeline for rapid identification of homologous gene families in a set of genomes
...homologous gene families in a set of genomes - a central task of any comparative genomics analysis. The "gold...s is problematic, as the modern deluge of sequencing data means that comparative genomics analyses could be pe...1363 days ago
Sibelia: A comparative genomics tool
Sibelia: A comparative genomics tool: It assists biologists in analysing the genomic variations that correlate with pathogens, or the genomic changes that help microorganisms a...1354 days ago
CRBHits: From Conditional Reciprocal Best Hits to Codon Alignments and Ka/Ks in R
...alignments to Ka/Ks calculations and synteny. The new R package targets ecology, population and evolutionary biologists working in the field of comparative genomics.1273 days ago