Cargando…

A linear model for predicting performance of short-read aligners using genome complexity

Detalles Bibliográficos
Autores principales:	Tran, Quang, Gao, Shanshan, Vo, Nam S, Phan, Vinhthuy
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2015
Materias:	Poster Presentation
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4625105/ http://dx.doi.org/10.1186/1471-2105-16-S15-P17

Ejemplares similares

Alignment of short reads to multiple genomes using hashing
por: Tran, Quang, et al.
Publicado: (2014)

How genome complexity can explain the difficulty of aligning reads to genomes
por: Phan, Vinhthuy, et al.
Publicado: (2015)

Improving variant calling by incorporating known genetic variants into read alignment
por: Vo, Nam S, et al.
Publicado: (2015)

An integrated approach for SNP calling based on population of genomes
por: Vo, Nam S, et al.
Publicado: (2014)

A distributed framework for aligning short reads to genomes
por: Guo, Shanshan, et al.
Publicado: (2014)

Alignment-free methods for metagenomic profiling
por: Gao, Shanshan, et al.
Publicado: (2015)

RandAL: a randomized approach to aligning DNA sequences to reference genomes
por: Vo, Nam S, et al.
Publicado: (2014)

Analysis of optimal alignments unfolds aligners’ bias in existing variant profiles
por: Tran, Quang, et al.
Publicado: (2016)

Exploiting the bootstrap method to analyze patterns of gene expression
por: Vo, Nam S, et al.
Publicado: (2014)

Assembling Reads Improves Taxonomic Classification of Species
por: Tran, Quang, et al.
Publicado: (2020)

Determining gene response patterns of time series gene expression data using R
por: O’kello, Kevin L, et al.
Publicado: (2014)

Exploiting dependencies of pairwise comparison outcomes to predict patterns of gene response
por: Vo, Nam S, et al.
Publicado: (2014)

Using partially ordered sets to represent and predict true patterns of gene response to treatments
por: Vo, Nam S, et al.
Publicado: (2013)

Short read alignment with populations of genomes
por: Huang, Lin, et al.
Publicado: (2013)

PAUL: protein structural alignment using integer linear programming and Lagrangian relaxation
por: Wohlers, Inken, et al.
Publicado: (2009)

Short-read aligner performance in germline variant identification
por: Wilton, Richard, et al.
Publicado: (2023)

Using 16S rRNA gene as marker to detect unknown bacteria in microbial communities
por: Tran, Quang, et al.
Publicado: (2017)

mDAG: a web-based tool for analyzing microarray data with multiple treatments
por: Phan, Vinhthuy T, et al.
Publicado: (2011)

CGAP-Align: A High Performance DNA Short Read Alignment Tool
por: Chen, Yaoliang, et al.
Publicado: (2013)

Simultaneous alignment of short reads against multiple genomes
por: Schneeberger, Korbinian, et al.
Publicado: (2009)

Evaluating short-read sequence data from the highly redundant, novel transcriptome of Polarella glacialis
por: Gibbons, Theodore R, et al.
Publicado: (2011)

Vargas: heuristic-free alignment for assessing linear and graph read aligners
por: Darby, Charlotte A, et al.
Publicado: (2020)

LongAGE: defining breakpoints of genomic structural variants through optimal and memory efficient alignments of long reads
por: Tran, Quang, et al.
Publicado: (2020)

libgapmis: extending short-read alignments
por: Alachiotis, Nikolaos, et al.
Publicado: (2013)

Multiple alignment and structure prediction of non-coding RNA sequences
por: Lindgreen, Stinus, et al.
Publicado: (2007)

Reconstruction of a scoliotic spine using a three-dimensional medical ultrasound system
por: Vo, Quang N, et al.
Publicado: (2015)

Improving PacBio Long Read Accuracy by Short Read Alignment
por: Au, Kin Fai, et al.
Publicado: (2012)

The viral agents of Acute Encephalitis Sydrome in Ben Tre province 2008-2010
por: Huu, Tran Ngoc, et al.
Publicado: (2011)

Film-reading workload in the West Midlands
por: Rogers, N, et al.
Publicado: (2012)

Representing bacteria with unique genomic signatures
por: Pham, Diem-Trang, et al.
Publicado: (2022)

Flexible alignment in 3D and its applications
por: Kalaszi, A, et al.
Publicado: (2011)

Performance of a linear peristaltic infusion pump during red blood cells administration and the influence of infusion rates
por: Kusahara, DM, et al.
Publicado: (2015)

Fast and SNP-aware short read alignment with SALT
por: Quan, Wei, et al.
Publicado: (2021)

The agents of Sever Acute Respiratory Infection cases in Ben Tre province 2008-2010
por: Huu, Tran Ngoc, et al.
Publicado: (2011)

The Utility of Data Transformation for Alignment, De Novo Assembly and Classification of Short Read Virus Sequences
por: Tapinos, Avraam, et al.
Publicado: (2019)

Genomic analysis of gene regulation complexity
por: Barker, Brandon, et al.
Publicado: (2008)

Structure and function analysis of flexible alignment regions in proteins
por: Pirovano, Walter, et al.
Publicado: (2009)

Meta-aligner: long-read alignment based on genome statistics
por: Nashta-ali, Damoon, et al.
Publicado: (2017)

Mammography soft-copy reading: to digitise priors or not, that is the question
por: Galloway, L
Publicado: (2006)

Development of sparse Bayesian multinomial generalized linear model for multi-class prediction
por: Madahian, Behrouz, et al.
Publicado: (2014)

Cannot write session to /tmp/vufind_sessions/sess_fher8svtpmm2ipb2q5969gkb3o