MALVA: Genotyping by Mapping-free ALlele Detection of Known VAriants
...t mapping reads MALVA calls correctly more indels than the most widely adopted genotyping pipelines Mapping-free approaches are as accurate as alignment-based ones, while being faste...1569 days ago
1569 days ago
SeqMule: Automated human exome/genome variants detection
SeqMule takes single-end or paird-end FASTQ or BAM files, generates a script consisting of more than 10 popular alignment, analysis tools and runs the script line by line. Users can change the pipeline or fine-tune the parameters by modifying its configuration file.1548 days ago
LoFreq*: A sequence-quality aware, ultra-sensitive variant caller for NGS data
...eration sequencing data. It makes full use of base-call qualities and other sources of errors inherent in sequencing (e.g. mapping or base/indel alignment uncertainty), which are usual...1548 days ago
1516 days ago
Synteny and Rearrangement Identifier (SyRI)
...ting genomic differences between related genomes using whole-genome assemblies (WGA). The assemblies are aligned using whole-genome alignment tools, and these alignments are then used as input to Sy...1470 days ago
GRIDSS: the Genomic Rearrangement IDentification Software Suite
...ncludes a genome-wide break-end assembler, as well as a structural variation caller for Illumina sequencing data. GRIDSS calls variants based on alignment-guided positional de Bruijn g...1458 days ago
The wavefront alignment (WFA) algorithm
The wavefront alignment (WFA) algorithm is an exact gap-affine algorith...regions between the sequences to accelerate the alignment process. As opposed to tradit...(ns), proportional to the read length n and the alignment score s, using O(s^2) memory....1416 days ago
1359 days ago
Caretta – A multiple protein structure alignment and feature extraction suite
...ta – a multiple protein structure alignment and feature extraction suite Caretta, a multiple structure alignment suite meant for homologous bu...families which consistently returns accurate alignments with a higher coverage than...1244 days ago