PhyloGrapher - Graph Visualization Tool
PhyloGrapher is a program designed to visualize and study evolutionary relationships within families of homologous genes or proteins (elements). PhyloGrapher is a drawing tool that generates custom graphs for a given set of elements. In general, it is possible to use PhyloGrap...Tags: PhyloGrapher, Graph, Visualization, Tool
2242 days ago
VGSC: A Web-Based Vector Graph Toolkit of Genome Synteny and Collinearity
VGSC, the Vector Graph toolkit of genome Synteny and Collinearity, and its online service, to visualize the synteny and collinearity in the common graphical format, including both raster (JPEG, Bitmap, and PNG) and vector graphic (SVG, EPS, and PDF).Tags: VGSC, Web-Based, Vector, Graph, Toolkit, Genome, Synteny, Collinearity
2005 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 Cycles enumeration (aka Bubbles) as part of de novo de bruijn graphs assembly using colours can be unpractical fo...Tags: Π-cyc, Reference-free, SNP, Discovery, Application, Parallel, Graph, Search
1551 days ago
Glia: a Graph/Smith-Waterman (partial order) aligner/realigner
glia's main use is as a local realigner. It will realign reads to a set of known (or putative) variants in a VCF, both consuming and producing an ordered stream of BAM alignments. More at https://github.com/ekg/glia glia -f ~/human_g1k_v37.fasta -t 20:62900077-62902077 -v variants.vc...Tags: Glia, Graph, Smith-Waterman, partial, order, aligner, realigner
1551 days ago
Tags: PPanGGOLiN, Depicting, microbial, species, diversity, Partitioned, PanGenome, Graph, Linked, Neighbors
86 days ago
String graph based genome assembly software and tools !
In graph theory, a string graph is an intersection graph of curves in the plane; each curve is called a "string". String graphs were first proposed by E. W. Myers in a 2005 publication. In recent Genome Research paper describing an...Tags: String, graph, genome, assembly, software, tools !
2320 days ago
Tags: ChopStitch, exon, annotation, splice, graph, transcriptome, assembly, whole, genome, sequencing
2125 days ago