BEAP: Blast Extension and Assembly Program
...e original sequence for constructing a "full length" sequence for functional analysis, or at least to obtain neighboring regions of the segment for SNP discovery and linkage disequi...2148 days ago
HapCUT2: robust and accurate haplotype assembly for diverse sequencing technologies
...T reads (PacBio) Oxford Nanopore reads 10X Genomics Linked-Reads proximity-ligation (Hi-C) reads high-coverage sequencing (>40x coverage-per-SNP) using above technologies co...2175 days ago
Snippy: Rapid haploid variant calling and core SNP phylogeny
Snippy finds SNPs between a haploid reference genome and your NGS sequence reads. It will find both substitutions (snps) and insertions/deletions (i...sults using the same reference and generate a core SNP alignment (and ultimately a p...2018 days ago
HipSTR: Haplotype inference and phasing for Short Tandem Repeats
...quencing data Employing a specialized hidden Markov model to align reads to candidate alleles while accounting for STR artifacts Utilizing phased SNP haplotypes to genotype and ph...1879 days ago
Π-cyc: A Reference-free SNP Discovery Application using Parallel Graph Search
Reference free SNP search for comparative population genomics: multiple samples run simultanous...using graph decomposition then use filtering method to generate good quality SNPs. https://arxiv.org/abs/1809...1552 days ago
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