SALSA: A tool to scaffold long read assemblies with Hi-C
...Ghurye, J., Rhie, A., Walenz, B.P., Schmitt, A., Selvaraj, S., Pop, M., Phillippy, A.M. and Koren, S., 2018. Integrating Hi-C links with assembly graphs for chromosome-scale assembly...2150 days ago
2132 days ago
Genome U-Plot: a whole genome visualization
Genome U-Plot for producing clear and intuitive graphs that allows researchers to generate novel insights and hypotheses by visualizing SVs such as deletions, amplifications, and chro...2121 days ago
REVIGO: Reduced Visualize gene ontology
...ms and summarize them by removing redundant GO terms. The remaining terms can be visualized in semantic similarity-based scatterplots, interactive graphs, or tag clouds. More abo...2104 days ago
LoRMA: A tool for correcting sequencing errors in long reads
...ethod that uses long reads only. The method consists of two phases: first, we use an iterative alignment-free correction method based on de Bruijn graphs with increasing length of&nbs...2066 days ago
NovoGraph: building whole genome graphs from long-read-based de novo assemblies
NovoGraph: building whole genome graphs from long-read-based de novo assemblies An algorithmically novel approach to construct a genome graph representation of long-read-based d...1996 days ago
GenomeView: genome browser and annotation editor
GenomeView is a genome browser and annotation editor that displays reference sequence, annotation, multiple alignments, short read alignments and graphs. Most major data formats are s...1949 days ago
SDA: Long-read sequence and assembly of segmental duplications
Segmental Duplication Assembler (SDA; https://github.com/mvollger/SDA) constructs graphs in which paralogous sequence variants define the nodes and long-read sequences provide attract...1887 days ago
Minipolish: A tool for Racon polishing of miniasm assemblies
...be used to clean up assembly errors. It's also very fast and well suited for long-read data. However, it operates on FASTA files, not the GFA graphs that miniasm makes. Tha...1614 days ago
GfaViz: flexible and interactive visualization of GFA sequence graphs
...ment Assembly) is an emerging standard format for representing sequence graphs. Although it was originally c...is more general, and able to represent many different types of sequence graphs, including scaffolding graphs...1563 days ago