Cargando…

NovoGraph: Human genome graph construction from multiple long-read de novo assemblies

Genome graphs are emerging as an important novel approach to the analysis of high-throughput human sequencing data. By explicitly representing genetic variants and alternative haplotypes in a mappable data structure, they can enable the improved analysis of structurally variable and hyperpolymorphic...

Descripción completa

Detalles Bibliográficos
Autores principales:	Biederstedt, Evan, Oliver, Jeffrey C., Hansen, Nancy F., Jajoo, Aarti, Dunn, Nathan, Olson, Andrew, Busby, Ben, Dilthey, Alexander T.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	F1000 Research Limited 2018
Materias:	Software Tool Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6305223/ https://www.ncbi.nlm.nih.gov/pubmed/30613392 http://dx.doi.org/10.12688/f1000research.15895.2

Ejemplares similares

Faucet: streaming de novo assembly graph construction
por: Rozov, Roye, et al.
Publicado: (2018)

A Sequence Distance Graph framework for genome assembly and analysis
por: Yanes, Luis, et al.
Publicado: (2019)

GPU acceleration of Darwin read overlapper for de novo assembly of long DNA reads
por: Ahmed, Nauman, et al.
Publicado: (2020)

MSF: Modulated Sub-graph Finder
por: Farman, Mariam R., et al.
Publicado: (2019)

Scalable and versatile container-based pipelines for de novo genome assembly and bacterial annotation.
por: de Almeida, Felipe Marques, et al.
Publicado: (2023)

QSRA – a quality-value guided de novo short read assembler
por: Bryant, Douglas W, et al.
Publicado: (2009)

Robust de novo pathway enrichment with KeyPathwayMiner 5
por: Alcaraz, Nicolas, et al.
Publicado: (2016)

De novo Nanopore read quality improvement using deep learning
por: LaPierre, Nathan, et al.
Publicado: (2019)

Building pathway graphs from BioPAX data in R
por: Benis, Nirupama, et al.
Publicado: (2016)

BED: a Biological Entity Dictionary based on a graph data model
por: Godard, Patrice, et al.
Publicado: (2018)

HAPDeNovo: a haplotype-based approach for filtering and phasing de novo mutations in linked read sequencing data
por: Zhou, Xin, et al.
Publicado: (2018)

De novo assembly of viral quasispecies using overlap graphs
por: Baaijens, Jasmijn A., et al.
Publicado: (2017)

GraphAligner: rapid and versatile sequence-to-graph alignment
por: Rautiainen, Mikko, et al.
Publicado: (2020)

SPAligner: alignment of long diverged molecular sequences to assembly graphs
por: Dvorkina, Tatiana, et al.
Publicado: (2020)

LigninGraphs: lignin structure determination with multiscale graph modeling
por: Wang, Yifan, et al.
Publicado: (2022)

Metassembler: merging and optimizing de novo genome assemblies
por: Wences, Alejandro Hernandez, et al.
Publicado: (2015)

TraRECo: a greedy approach based de novo transcriptome assembler with read error correction using consensus matrix
por: Yoon, Seokhyun, et al.
Publicado: (2018)

Recycler: an algorithm for detecting plasmids from de novo assembly graphs
por: Rozov, Roye, et al.
Publicado: (2017)

LDscaff: LD-based scaffolding of de novo genome assemblies
por: Zhao, Zicheng, et al.
Publicado: (2020)

A graph-based approach to construct target-focused libraries for virtual screening
por: Naderi, Misagh, et al.
Publicado: (2016)

Bifrost: highly parallel construction and indexing of colored and compacted de Bruijn graphs
por: Holley, Guillaume, et al.
Publicado: (2020)

GenGraph: a python module for the simple generation and manipulation of genome graphs
por: Ambler, Jon Mitchell, et al.
Publicado: (2019)

Jupyter notebook-based tools for building structured datasets from the Sequence Read Archive
por: Bernstein, Matthew N., et al.
Publicado: (2020)

Ultraplexing: increasing the efficiency of long-read sequencing for hybrid assembly with k-mer-based multiplexing
por: Dilthey, Alexander T., et al.
Publicado: (2020)

De novo assembly of bacterial transcriptomes from RNA-seq data
por: Tjaden, Brian
Publicado: (2015)

SuRankCo: supervised ranking of contigs in de novo assemblies
por: Kuhring, Mathias, et al.
Publicado: (2015)

Clover: a clustering-oriented de novo assembler for Illumina sequences
por: Hsieh, Ming-Feng, et al.
Publicado: (2020)

Disease ontologies for knowledge graphs
por: Kurbatova, Natalja, et al.
Publicado: (2021)

De novo assembly and genotyping of variants using colored de Bruijn graphs
por: Iqbal, Zamin, et al.
Publicado: (2012)

iAssembler: a package for de novo assembly of Roche-454/Sanger transcriptome sequences
por: Zheng, Yi, et al.
Publicado: (2011)

De novo assembly of bacterial genomes with repetitive DNA regions by dnaasm application
por: Kuśmirek, Wiktor, et al.
Publicado: (2018)

Compacta: a fast contig clustering tool for de novo assembled transcriptomes
por: Razo-Mendivil, Fernando G., et al.
Publicado: (2020)

Graph4Med: a web application and a graph database for visualizing and analyzing medical databases
por: Schäfer, Jero, et al.
Publicado: (2022)

GraphSNP: an interactive distance viewer for investigating outbreaks and transmission networks using a graph approach
por: Permana, Budi, et al.
Publicado: (2023)

FORGe: prioritizing variants for graph genomes
por: Pritt, Jacob, et al.
Publicado: (2018)

Kinome-wide polypharmacology profiling of small molecules by multi-task graph isomorphism network approach
por: Bao, Lingjie, et al.
Publicado: (2023)

transXpress: a Snakemake pipeline for streamlined de novo transcriptome assembly and annotation
por: Fallon, Timothy R., et al.
Publicado: (2023)

Graphle: Interactive exploration of large, dense graphs
por: Huttenhower, Curtis, et al.
Publicado: (2009)

CIG-P: Circular Interaction Graph for Proteomics
por: Hobbs, Christopher K, et al.
Publicado: (2014)

GeneMANIA: Fast gene network construction and function prediction for Cytoscape
por: Montojo, Jason, et al.
Publicado: (2014)

Cannot write session to /tmp/vufind_sessions/sess_fi6l6toh2t45c68c3ucbiu87av