Cargando…

crosshap: R package for local haplotype visualization for trait association analysis

SUMMARY: Genome-wide association studies (GWAS) excels at harnessing dense genomic variant datasets to identify candidate regions responsible for producing a given phenotype. However, GWAS and traditional fine-mapping methods do not provide insight into the complex local landscape of linkage that co...

Descripción completa

Detalles Bibliográficos
Autores principales:	Marsh, Jacob I, Petereit, Jakob, Johnston, Brady A, Bayer, Philipp E, Tay Fernandez, Cassandria G, Al-Mamun, Hawlader A, Batley, Jacqueline, Edwards, David
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2023
Materias:	Applications Note
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10471896/ https://www.ncbi.nlm.nih.gov/pubmed/37607004 http://dx.doi.org/10.1093/bioinformatics/btad518

Ejemplares similares

Expanding Gene-Editing Potential in Crop Improvement with Pangenomes
por: Tay Fernandez, Cassandria G., et al.
Publicado: (2022)

Haplotype mapping uncovers unexplored variation in wild and domesticated soybean at the major protein locus cqProt-003
por: Marsh, Jacob I., et al.
Publicado: (2022)

HTRX: an R package for learning non-contiguous haplotypes associated with a phenotype
por: Yang, Yaoling, et al.
Publicado: (2023)

Isolation and Sequencing of Chromosome Arm 7RS of Rye, Secale cereale
por: Petereit, Jakob, et al.
Publicado: (2022)

Evaluating Plant Gene Models Using Machine Learning
por: Upadhyaya, Shriprabha R., et al.
Publicado: (2022)

Pangenomics and Crop Genome Adaptation in a Changing Climate
por: Petereit, Jakob, et al.
Publicado: (2022)

DNABERT-based explainable lncRNA identification in plant genome assemblies
por: Danilevicz, Monica F., et al.
Publicado: (2023)

Pangenomes as a Resource to Accelerate Breeding of Under-Utilised Crop Species
por: Tay Fernandez, Cassandria Geraldine, et al.
Publicado: (2022)

FamAgg: an R package to evaluate familial aggregation of traits in large pedigrees
por: Rainer, Johannes, et al.
Publicado: (2016)

pgainsim: an R-package to assess the mode of inheritance for quantitative trait loci in GWAS
por: Scherer, Nora, et al.
Publicado: (2021)

KMgene: a unified R package for gene-based association analysis for complex traits
por: Yan, Qi, et al.
Publicado: (2018)

mbQTL: an R/Bioconductor package for microbial quantitative trait loci (QTL) estimation
por: Movassagh, Mercedeh, et al.
Publicado: (2023)

twoddpcr: an R/Bioconductor package and Shiny app for Droplet Digital PCR analysis
por: Chiu, Anthony, et al.
Publicado: (2017)

BCFtools/csq: haplotype-aware variant consequences
por: Danecek, Petr, et al.
Publicado: (2017)

Haptools: a toolkit for admixture and haplotype analysis
por: Massarat, Arya R, et al.
Publicado: (2023)

cerebroViz: an R package for anatomical visualization of spatiotemporal brain data
por: Bahl, Ethan, et al.
Publicado: (2017)

Identifying and removing haplotypic duplication in primary genome assemblies
por: Guan, Dengfeng, et al.
Publicado: (2020)

StrainDesign: a comprehensive Python package for computational design of metabolic networks
por: Schneider, Philipp, et al.
Publicado: (2022)

HI: haplotype improver using paired-end short reads
por: Long, Quan, et al.
Publicado: (2009)

Evaluation of haplotype-aware long-read error correction with hifieval
por: Guo, Yujie, et al.
Publicado: (2023)

Path2PPI: an R package to predict protein–protein interaction networks for a set of proteins
por: Philipp, Oliver, et al.
Publicado: (2016)

protti: an R package for comprehensive data analysis of peptide- and protein-centric bottom-up proteomics data
por: Quast, Jan-Philipp, et al.
Publicado: (2021)

scphaser: haplotype inference using single-cell RNA-seq data
por: Edsgärd, Daniel, et al.
Publicado: (2016)

SPEARS: Standard Performance Evaluation of Ancestral haplotype Reconstruction through Simulation
por: Manching, Heather, et al.
Publicado: (2020)

GENLIB: new function to simulate haplotype transmission in large complex genealogies
por: Rakesh, Mohan, et al.
Publicado: (2023)

An R package for ensemble learning stacking
por: Nukui, Taichi, et al.
Publicado: (2023)

hapConstructor: automatic construction and testing of haplotypes in a Monte Carlo framework
por: Abo, Ryan, et al.
Publicado: (2008)

rtracklayer: an R package for interfacing with genome browsers
por: Lawrence, Michael, et al.
Publicado: (2009)

graphkernels: R and Python packages for graph comparison
por: Sugiyama, Mahito, et al.
Publicado: (2018)

KiT: a MATLAB package for kinetochore tracking
por: Armond, Jonathan W., et al.
Publicado: (2016)

spiralize: an R package for visualizing data on spirals
por: Gu, Zuguang, et al.
Publicado: (2021)

Modified RNAs and predictions with the ViennaRNA Package
por: Varenyk, Yuliia, et al.
Publicado: (2023)

Genetic and Genomic Resources for Soybean Breeding Research
por: Petereit, Jakob, et al.
Publicado: (2022)

The phers R package: using phenotype risk scores based on electronic health records to study Mendelian disease and rare genetic variants
por: Aref, Layla, et al.
Publicado: (2022)

MetaboDiff: an R package for differential metabolomic analysis
por: Mock, Andreas, et al.
Publicado: (2018)

KODAMA: an R package for knowledge discovery and data mining
por: Cacciatore, Stefano, et al.
Publicado: (2017)

admixturegraph: an R package for admixture graph manipulation and fitting
por: Leppälä, Kalle, et al.
Publicado: (2017)

admixr—R package for reproducible analyses using ADMIXTOOLS
por: Petr, Martin, et al.
Publicado: (2019)

treeheatr: an R package for interpretable decision tree visualizations
por: Le, Trang T, et al.
Publicado: (2020)

pyrpipe: a Python package for RNA-Seq workflows
por: Singh, Urminder, et al.
Publicado: (2021)

Cannot write session to /tmp/vufind_sessions/sess_7a3m41hslmr0u2dihj63n2a7lk