Results for "Phasing"
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What does phasing mean in biology/genetics?
Hi There, I recently came across a new term "phasing". What does it mean? I only know it means "genes separated by chromosome" only, can anyone please explain it for me. Thanks in advance.Tags: Genes, Separated, Chromosome, Biology, Phasing
2845 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 engineered pWhatsHap, a parallel, high-performance version of WhatsHap. pWhatsHap is embedded in a toolkit developed in Python and supports genomics datasets in standar...Tags: pWhatsHap, parallel, high-performance, WhatsHap, Phasing, Phase, Genome, Alles, Haplotype
1989 days ago
ALLHiC: Phasing and scaffolding polyploid genomes based on Hi-C data
The major problem of scaffolding polyploid genome is that Hi-C signals are frequently detected between allelic haplotypes and any existing stat of art Hi-C scaffolding program links the allelic haplotypes together. To solve the problem, we developed a new Hi-C scaffolding pipeline, called ALLHIC,...Tags: ALLHiC, Phasing, scaffolding, polyploid, genomes, Hi-C, data, assembly
1953 days ago
Tools and Method for Haplotype phasing !
Huge amounts of genotype data are being produced with recent technological advances, both from increasingly comprehensive and inexpensive genome-wide SNP microarrays and from ever more accessible whole-genome and whole-exome sequencing methods. The vast amount of knowledge contained in thes...Tags: Tools, Method, Haplotype, phasing
1328 days ago
WhatsHap: fast and accurate read-based phasing
WhatsHap is a software for phasing genomic variants using DNA sequencing reads, also called read-based phasing or haplotype assembly. It is especially suitable for long reads, but works also well with short reads. Features Very accurate results (Martin et al., WhatsHap: fast and accu...Tags: WhatsHap, fast, accurate, read-based, phasing
2159 days ago
HipSTR: Haplotype inference and phasing for Short Tandem Repeats
HipSTR was specifically developed to deal with these errors in the hopes of obtaining more robust STR genotypes. In particular, it accomplishes this by: Learning locus-specific PCR stutter models using an EM algorithm Mining candidate STR alleles from population-scale sequencing dat...Tags: HipSTR, Haplotype, inference, phasing, Short, Tandem, Repeats
1875 days ago
Merqury: reference-free quality and phasing assessment for genome assemblies
Often, genome assembly projects have illumina whole genome sequencing reads available for the assembled individual. The k-mer spectrum of this read set can be used for independently evaluating assembly quality without the need of a high quality reference. Merqury provides a set of tools for this ...Tags: Merqury, reference-free, quality, phasing, assessment, genome, assemblies
1419 days ago
homologizer: Phylogenetic phasing of gene copies into polyploid subgenomes
This tutorial describes the usage of homologizer to phase gene copies into polyploid subgenomes. The tutorial is an abbreviated version of a soon-to-be published paper in Methods in Molecular Biology. Please see that paper for many more details and practical considerations for running&n...Tags: homologizer, Phylogenetic, phasing, gene, copies, polyploid, subgenomes
326 days ago
