2584 days ago
MGRA: Breakpoint graphs and ancestral genome reconstructions
MGRA (Multiple Genome Rearrangements and Ancestors) is a tool for reconstruction of ancestor genomes and evolutionary history of extant genomes. It takes as an input a...2519 days ago
Bandage: interactive visualization of de novo genome assemblies
Bandage (a Bioinformatics Application for Navigating De novo Assembly Graphs Easily) is a tool for visualizing assembly graphs with connections. Users can zoom in to specific areas of the graph...2387 days ago
MeDuSa: a multi-draft based scaffolder
...he correct order and orientation of the contigs. MeDuSa formalises the scaffolding problem by means of a combinatorial optimisation formulation on graphs and implements an efficient c...2315 days ago
Rectangle Graph for Repeat Resolution in Genome Assembly
...ers if they use the graph format as SPAdes files. For more details see: Nikolay Vyahhi, Son K. Pham, Pavel Pevzner. From de Bruijn Graphs to Rectangle Graphs for Genome Assembly, Lec...2363 days ago
RGFA: powerful and convenient handling of assembly graphs
RGFA, an implementation of the proposed GFA specification in Ruby. It allows the user to conveniently parse, edit and write GFA files. Complex operations such as the se...1610 days ago
circosJS: d3 library to build circular graphs
Circos is a javascript library to easily build interactive graphs in a circular layout. It's based on d3.js. It aims to be a javascript version of the Circos software. You should consider using Circos to show: relationships between entities periodical data2316 days ago
PhyloGrapher - Graph Visualization Tool
...lutionary relationships within families of homologous genes or proteins (elements). PhyloGrapher is a drawing tool that generates custom graphs for a given set of elements....2293 days ago
d3Network:Tools for creating D3 JavaScript network, tree, dendrogram, and Sankey graphs from R.
...is great for creating interactive network graphs with JavaScript. The&nbs...;package makes it easy to create these network graphs from R. The main idea is...n members of a network and create full network graphs with one command.2264 days ago
HISAT2: a fast and sensitive alignment program for mapping next-generation sequencing reads
...n sequencing reads (both DNA and RNA) to a population of human genomes (as well as to a single reference genome). Based on an extension of BWT for graphs [Sirén et al. 201...2232 days ago