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 w...hows that SKESA produces assemblies that have high sequence...2058 days ago
AMStat: display statistics of large sequence files from next generation sequencing projects
...rogram to quickly display statistics of large sequence files from next generation se...roblems, such as remaining linker and adaptor sequences, causing poor mapping. Apart...o verify individual processing steps in large analysis pipelines.2062 days ago
Pacasus: Correction of palindromes in long reads from PacBio and Nanopore
Tool for detecting and cleaning PacBio / Nanopore long reads after whole genome amplification. Check the poster from...orxiv.org/content/early/2017/08/09/173872 It uses the pyPaSWAS framework for sequence...2060 days ago
ANItools web: a web tool for fast genome comparison within multiple bacterial strains
...te their average nucleotide identity (ANI), you could download and run this program directly. Or you could send us the genome sequence by email. Then we will do the analysis work for you. https://academ...2058 days ago
pWhatsHap: a parallel, high-performance version of WhatsHap
Given the potential relevance of efficient haplotyping in several analysis pipelines, we have designed and enginee...2058 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 t...construct a genome graph representation of long-read-based de novo sequence...2056 days ago
SISRS: Site Identification from Short Read Sequences
Next-gen sequence data such as Illumina HiSeq reads. Data must be sorted into folders by taxon (e.g. species or genus). Paired reads in fastq format must be specified by _R1 and _R2 in the (otherwise identical) filenames. Paired and unpaired reads must have a fastq file extension.2044 days ago
GWASpro: A High-Performance Genome-Wide Association Analysis Server
GWASpro supports building complex design matrices, by which complex experimental designs that may include replications, treatments, locations and times, can be accounted...2035 days ago
BLAST options, setting and defaults
BLAST stands for Basic Local Alignment Search Tool and was developed by Alt...NA databases. BLAST is best used for sequence similarity searching, rather...earching. For searches using a query sequence of fewer than twenty residues...d between the database and the query sequence...2032 days ago
Genome sequence-based (sub-)species delineation.
The GGDC web service reports digital DDH for a universal and accurate delineation of prokaryotic (sub-)species without inheriting the pitfalls of classic DDH, and also c...2030 days ago