2345 days ago
HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution
...Paper: http://genome.cshlp.org/content/27/5/747.full An ipython notebook to reproduce results in the paper can be found in this repository. HINGE is an OLC(Ov...2340 days ago
Circoletto: visualizing sequence similarity with Circos
Circoletto, an online visualization tool based on Circos, which provides a fast, aesthetically pleasing and informative overview of sequence similarity search results. Online versi...2338 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 data2334 days ago
MeDuSa: a multi-draft based scaffolder
MeDuSa (Multi-Draft based Scaffolder), an algorithm for genome scaffolding. MeDuSa exploits information obtained from a set of (draft or closed) genomes from related organisms to de...2333 days ago
2332 days ago
Genome assembly stats plotting
...ig Scaffold/contig N50 and N90Assembly base composition, in particular percentag...ces an additional circular plot that summarises most commonly used assembly metri...tributions and the challenge of interpreting ratios of values that may vary by se...2319 days ago
Multi-CAR: a tool of contig scaffolding using multiple references
...elationships among the draft and reference genomes and libraries of paired-end reads. To validate Multi-CAR, we have tested it on a real dataset composed of several prokaryotic geno...2313 days ago
PhyloGrapher - Graph Visualization Tool
...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 PhyloGrapher...2311 days ago
Reference-free prediction of rearrangement breakpoint reads
...en applied to a dataset with a sequencing depth of 100×, it finds ∼88% of the breakpoints correctly with no false-positive reads. Moreover, evaluation on a real prostate cancer dataset shows that...2311 days ago