RNAcon: web-server for the prediction and classification of non-coding RNAs
RNAcon is a web-server for the prediction and classification of non-coding RNAs. It u...ssification of ncRNAs into different classes. The structural information based graph properties were used for the...2485 days ago
Meraculous: De Novo Genome Assembly with Short Paired-End Reads
...es. Incorporating fosmid ends recovers entire chromosomes. Meraculous relies on an efficient and conservative traversal of the subgraph of the k-mer (deBruijn) graph of oligonucleotides with uniq...2372 days ago
TULIP - The Uncorrected Long read Itegration Pipeline
#Running TULIP (The Uncorrected Long-read Integration Process), version 0.4 late 2016...s as input alignments files of long reads to sparse short seeds, and outputs a graph and scaffold structures. Tuli...2356 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It...ead self-mappings (typically by minimap) as input and outputs an assembly graph in the GFA format....2352 days ago
2350 days ago
Bandage: interactive visualization of de novo genome assemblies
Bandage (a Bioinformatics Application for Navigating De novo Assembly Graphs Easily) is a tool for visualizing assembly graphs with connections. Users can...earches can be performed within the Bandage graphical user interface and the hi...2345 days ago
Mugsy: multiple whole genome alignment tool
Mugsy is a multiple whole genome aligner. Mugsy uses Nucmer for pairwise alignment, a custom graph based segmentation procedure...2340 days ago
dipSPAdes: Assembler for Highly Polymorphic Diploid Genomes.
...ing HP genomes were proposed in the pre-NGS era and are not well suited for NGS projects. To address this limitation, we developed the first de Bruijn graph assembler, dipSPAdes, for HP...2328 days ago
Ra assembler - a de novo DNA assembler for third generation sequencing data
Integration of the Ra assembler - a de novo DNA assembler for third gener...etecting overlaps using a very sensitive and specific overlapper ("graphmap -w owler", https://github.com/isovic/graphmap) and constructing and redu...2321 days ago
Rectangle Graph for Repeat Resolution in Genome Assembly
...tion of the idea of the rectangle graph approach is already included i...e're also releasing the Rectangle Graph Module (RGM) as the separate...t implementation of the rectangle graph approach in SPAdes, in the fu...Pham, Pavel Pevzner. From de Bruijn Graphs to Rectangle Graphs f...2321 days ago