GfaViz: flexible and interactive visualization of GFA sequence graphs
...the name), and this remains its core application, it is more general, and able to represent many different types of sequence graphs, including scaffolding graphs, alignment graphs, var...1561 days ago
Tadpole: an assembler, error-corrector, and read-extender
...nd extending reads. It does not do any complicated graph analysis or scaffolding, and therefore, is not partic...y branch, and condenses every repeat. Also, it does not currently do scaffolding. To error-correct re...1549 days ago
MEC: Contig Misassembly Correction
...tasets, and carry out experiments to analyze the influence of MEC on scaffolding results, which shows that MEC...misassemblies effectively and result in quantitative improvements in scaffolding quality. MEC is publicly avai...1549 days ago
CSAR-web: a web server of contig scaffolding using algebraic rearrangements
...t draft genome based on a complete or incomplete reference genome from a related organism. CSAR-web can serve as a convenient and useful scaffolding tool allowing the users to ef...1484 days ago
gapFinisher: A reliable gap filling pipeline for SSPACE-LongRead scaffolder output
gapFinisher to process SSPACE-LongRead output to fill gaps after the scaffolding. gapFinisher is based on the controlled use of a previously published gap filling tool FGAP and works on all standard Linux/UNIX command lines. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6733440/1449 days ago
1284 days ago
RagTag: a collection of software tools for scaffolding and improving modern genome assemblies
RagTag is a collection of software tools for scaffolding and improving modern genome assemblies. Tasks include: Homology-based misassembly correction Homology-based assembly scaffolding and patching Scaffold merging965 days ago