Results for "Genome"
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odgi: optimized dynamic genome/graph implementation
odgi provides an efficient and succinct dynamic DNA sequence graph model, as well as a host of algorithms that allow the use of such graphs in bioinformatic analyses. Careful encoding of graph entities allows odgi to efficiently compute and transform pangenomes with mini...Tags: odgi, optimized, dynamic, genome, graph, implementation, genome, assembly, graph
833 days ago
- chromeister: An ultra fast, heuristic approach to detect conserved signals in extremely large pairwise genome comparisons. USAGE: -query: sequence A in fasta format -db: sequence B in fasta format -out: output matrix -kmer Integer: k>1 (default 32) Use 32 for chromosomes and genomes and...
Tags: chromeister, fast, heuristic, approach, detect, conserved, signals, extremely, large, pairwise, genome, comparisons
832 days ago
Comparative genomics visualisation tools !
Comparative genomics visualisation tools !Tags: Comparative, genomics, genome, visualisation, view, see, plot, tools, tool
818 days ago
Smudgeplot: Inference of ploidy and heterozygosity structure using whole genome sequencing data
This tool extracts heterozygous kmer pairs from kmer count databases and performs gymnastics with them. We are able to disentangle genome structure by comparing the sum of kmer pair coverages (CovA + CovB) to their relative coverage (CovB / (CovA + CovB)). Such an approach also allows us to analy...Tags: Smudgeplot, Inference, ploidy, heterozygosity, structure, whole, genome, sequencing, data
810 days ago
Genomicus: genome browser that enables users to navigate in genomes in several dimensions
Genomicus is a genome browser that enables users to navigate in genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time. Once a query gene has been entered, it is displayed in its genomic context in parallel...Tags: Genomicus, genome, browser, enables, navigate, genomes, several, dimensions, chromosome, evolution, ancestral, genome
806 days ago
- The Institute of Bioinformatics conducts internationally renowned research and provides profound education in bioinformatics. Its research focuses on development and application of machine learning and statistical methods in biology and medicine. Contact: Computer Science Building (Science Pa...
Tags: Bioinformatics, machine, learning, Austria, genome
803 days ago
The complete sequence of a human genome
The completed regions include all centromeric satellite arrays, recent segmental duplications, and the short arms of all five acrocentric chromosomes, unlocking these complex regions of the genome to variational and functional studies.Tags: complete, sequence, human, genome
775 days ago
GenomeQC: a quality assessment tool for genome assemblies and gene structure annotations
The GenomeQC web application is implemented in R/Shiny version 1.5.9 and Python 3.6 and is freely available at https://genomeqc.maizegdb.org/ under the GPL license. All source code and a containerized version of the GenomeQC pipeline is available in the GitHub repository https://gi...Tags: GenomeQC, quality, assessment, tool, genome, assemblies, gene, structure, annotations
727 days ago
Monkeypox virus isolate MPXV_USA_2022_MA001, complete genome
LOCUS ON563414 197205 bp DNA linear VRL 30-MAY-2022 DEFINITION Monkeypox virus isolate MPXV_USA_2022_MA001, complete genome. ACCESSION ON563414 VERSION ON563414.3 KEYWORDS . SOURCE Monkeypox virus (monkeypox) ORGANISM Monkeypox virus ...Tags: Monkeypox, virus, isolate, MPXV_USA_2022_MA001, complete, genome
659 days ago
- https://dbikard.github.io/genomenotebook/ Install pip install genomenotebook How to use Create a simple genome browser with a search bar. The sequence appears when zooming in. import genomenotebook as gn g=gn.GenomeBrowser(genome_path, gff_path, init_pos=10000) g.show() Tracks c...
Tags: genome, book, visualize
390 days ago
