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 u...2364 days ago
MetaSim A Sequencing Simulator for Genomics and Metagenomics.
Our software can be used to generate collections of synthetic reads that reflect the diverse taxonomical composition of typical metagenome data sets. Based on...2359 days ago
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kraken: A universal genomic coordinate translator for comparative genomics
If you planning on conducting a study involving dozens of large genomes, then you do not have to run all pairwise synteny alignments .. simply try kraken: A universal genomic coordinate translator for comparative genomics2357 days ago
TeachEnG: Teaching Engine for Genomics
TeachEnG (pronounced “teaching”), a Teaching Engine for Genomics, provides educational games to help stu...2350 days ago
GIGGLE: a search engine for large-scale integrated genome analysis
GIGGLE is a genomics search engine that identifies and ranks the significance of genomic loci s...ends the accessibility and utility of resources such as ENCODE, Roadmap Epigenomics, and GTEx by facilitating dat...2323 days ago
Dot, an interactive viewer for genome-genome comparison
Dot, an interactive dot plot viewer that allows genome scientists to visualize genome...ments in order to evaluate new assemblies and perform exploratory comparative genomics. Dot supports the outp...2318 days ago
PGAP-X: Extension on pan-genome analysis pipeline
PGAP-X is a microbial comparative genomic analysis platform with graphic interface. S...and methodologies have been developed and integrated to analyze and visualize genomics structure variation, gene dis...2309 days ago
ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
ETE v3, featuring numerous improvements in the underlying library of methods, and pro...viding a novel set of standalone tools to perform common tasks in comparative genomics and phylogenetics. The new...2282 days ago
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