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MGcV: the microbial genomic context viewer for comparative genome analysis
MGcV is an interactive web-based visalization tool tailored to facilitate small scale...ut-box by selecting the type of identifier and pasting identifiers (one per line) or by using the g...2310 days ago
ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
ETE v3, featuring numerous improvements in the underlying library of methods, and providing a novel set of standalon...ude (i) building gene-based and supermatrix-based phylogenies using a single comm...2289 days ago
d3Network:Tools for creating D3 JavaScript network, tree, dendrogram, and Sankey graphs from R.
Mike Bostock’s D3.js is great for creating interactive network graphs with JavaScript. The...tionships between members of a network and create full network graphs with one comm...2242 days ago
MITObim - mitochondrial baiting and iterative mapping
This document contains instructions on how to use the MITObim pipeline described in Hahn et al. 2013. The full a...u are using MITObim in your work. The pipeline was originally developed for&...tentially safe you a lot of time down the line. I provide further examples&...2211 days ago
HapCUT2: robust and accurate haplotype assembly for diverse sequencing technologies
...using above technologies combinations of the above technologies (e.g. scaffold long reads with Hi-C reads) See below for specific examples of command line options and best practices fo...2204 days ago
minimap2: A versatile pairwise aligner for genomic and spliced nucleotide sequences
...ps.paf # PacBio read overlap ./minimap2 -x ava-ont reads.fa reads.fa > overlaps.paf # Nanopore read overlap # man page for detailed command line options man ./minimap2.12168 days ago
REVIGO: Reduced Visualize gene ontology
REViGO can take long lists of Gene Ontology terms and summarize them by removing redun... | Please enter a list of Gene Ontology IDs below, each on its own line. The GO IDs may be followed b...2127 days ago