2587 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 for identifying collinear regions, and the segment-base...2382 days ago
Dot, an interactive viewer for genome-genome comparison
...gnments in order to evaluate new assemblies and perform exploratory comparative genomics. Dot supports the output of MUMmer’s nucmer aligner the most commonly used softwa...2345 days ago
LAMSA: fast split read alignment with long approximate matches
LAMSA (Long Approximate Matches-based Split Aligner) is a novel split alignment approach with faster speed a...te that it is substantially faster than the state-of-the-art long read aligners; mean-while, it also has goo...2225 days ago
minimap2: A versatile pairwise aligner for genomic and spliced nucleotide sequences
git clone https://github.com/lh3/minimap2 cd minimap2 && make # long sequences against a reference genome ./minimap2 -a test/MT-human.fa test/MT-orang.fa >...2189 days ago
Mulan: Multiple-sequence local alignment and visualization for studying function and evolution
...quality sequences to identify functional elements conserved over evolutionary time. Mulan brings together several novel algorithms: the TBA multi-aligner program for rapid identificat...2124 days ago
Versatile genome assembly evaluation with QUAST-LG
...to your command! A short list of the new features (see CHANGES for all): Significant speedup achieved by both use of new fast aligner (minimap2) and the refactorin...2004 days ago
Glia: a Graph/Smith-Waterman (partial order) aligner/realigner
glia's main use is as a local realigner. It will realign reads to a set of known (or putative) variants in a VCF, both consuming and producing an ordered stream of BAM alignments.&nbs...1602 days ago
PuffAligner: a fast, efficient and accurate aligner based on the Pufferfish index
PuffAligner, a fast, accurate and versatile aligner built on top of the Pufferfish index. PuffAligner is able to produce highly sensitive alignments, simila.... While exhibiting similar speed to the ultrafast STAR aligner, PuffAligner requires conside...788 days ago