2134 days ago
ReMILO: reference assisted misassembly detection algorithm using short and long reads.
...he initial short reads to both the contigs and reference genome, and then constructs a novel data structure called red-black multipositional de Bruijn graph to detect misassemblies. In a...2131 days ago
FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
...g data, FMLRC will build an FM-index and use that as an implicit de Bruijn graph. Each long read is then correc...with the closest matching high frequency k-mers in the implicit de Bruijn graph. In contrast to other de Brui...2095 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
Choosing whether to use second or third generation sequencing platforms can lead to t...reads are corrected using the short reads. Current approaches rely on various graph based alignment techniques an...2085 days ago
LoRMA: A tool for correcting sequencing errors in long reads
...on method 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&nb...2068 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).2015 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...2000 days ago
2000 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...1998 days ago
SiLiX: implements an ultra-efficient algorithm for the clustering of homologous sequences
The software package SiLiX implements an ultra-efficient algorithm for the clust...ve links (single linkage) with alignment coverage constraints. SiLiX adopts a graph-theoretical framework to inte...1972 days ago