FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
...ata, FMLRC will build an FM-index and use that as an implicit de Bruijn graph. Each long read is then corre...th the closest matching high frequency k-mers in the implicit de Bruijn graph. In contrast to other de Brui...2087 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
...earchers often combine both technologies and the more erroneous long reads are corrected using the short reads. Current approaches rely on various graph based alignment techniques an...2077 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).2006 days ago
SKESA: strategic k-mer extension for scrupulous assemblies
SKESA is a DeBruijn graph-based de-novo assembler designed for assembling reads of microbial genomes sequenced using Illumina. Comparison with SPAdes and MegaHit shows that SKES...1991 days ago
1991 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 a...thmically novel approach to construct a genome graph representation of long-read-b...vide a proof of principle by creating a genome graph of seven ethnically-diverse h...1990 days ago
SiLiX: implements an ultra-efficient algorithm for the clustering of homologous sequences
...for the clustering of homologous sequences, based on single transitive links (single linkage) with alignment coverage constraints. SiLiX adopts a graph-theoretical framework to inte...1963 days ago
1933 days ago
SvABA: Genome-wide detection of structural variants and indels by local assembly
...ructural variants in sequencing data using genome-wide local assembly. Under the hood, SvABA uses a custom implementation of SGA (String Graph Assembler) by Jared Simpson,...1922 days ago
wtdbg2: A fuzzy Bruijn graph approach to long noisy reads assembly
Wtdbg2 is a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore Technologies (ONT). It assembles raw reads without error co...1909 days ago