mScaffolder: A comparative genome scaffolding tool
...their alignments to the reference genome. Please send your questions and comments to mchakrab@uci.edu. Citation https://www.nature.com/articles/s41588-017-0010-y2164 days ago
AlignQC: A tool for assessing an alignment, and generating reports that are easy to share
...nly requires a BAM file, and outputs a web browser compatible xhtml to visualize/share/store/extract analysis results. https://f1000research.com/articles/6-100/ https://github.com/ja...2111 days ago
Mulan: Multiple-sequence local alignment and visualization for studying function and evolution
Mulan: Multiple-sequence local alignment and visualization for studying function and evolution Mulan (http://mulan.dcode.org/), a novel method and a network server for...2093 days ago
Wtdbg2: a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore
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 corr...2037 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 t...2012 days ago
pWhatsHap: a parallel, high-performance version of WhatsHap
...lts enjoy the same high accuracy as that provided by WhatsHap, which increases with coverage. https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1170-y2011 days ago
NovoGraph: building whole genome graphs from long-read-based de novo assemblies
...es. We then provide a proof of principle by creating a genome graph of seven ethnically-diverse human genomes. https://f1000research.com/articles/7-1391/v12010 days ago
Hawkeye: an interactive visual analytics tool for genome assemblies
...available and released as part of the open source AMOS project http://amos.sourceforge.net/hawkeye. https://genomebiology.biomedcentral.com/articles/10.1186/gb-2007-8-3-r341963 days ago
Genome assembly forensics: finding the elusive mis-assembly
...d is compatible with common assembly formats and is released, open-source, at http://amos.sourceforge.net. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2397507/ http://amo...1938 days ago
nQuire: A statistical framework for ploidy estimation using NGS short-read data
nQuire implements a set of commands to estimate ploidy level of individuals from species, where recent polyploidization occurred and intraspecific ploidy variation is ob...1934 days ago