PANDAseq: paired-end assembler for illumina sequences

PANDAseq: paired-end assembler for illumina sequences

<p>Abstract</p> <p>Background</p> <p>Illumina paired-end reads are used to analyse microbial communities by targeting amplicons of the 16S rRNA gene. Publicly available tools are needed to assemble overlapping paired-end reads while correcting mismatches and uncalled ba...

Full description

Bibliographic Details
Main Authors:	Masella Andre P, Bartram Andrea K, Truszkowski Jakub M, Brown Daniel G, Neufeld Josh D
Format:	Article
Language:	English
Published:	BMC 2012-02-01
Series:	BMC Bioinformatics
Online Access:	http://www.biomedcentral.com/1471-2105/13/31

Similar Items

Ameliorated de novo transcriptome assembly using Illumina paired end sequence data with Trinity Assembler
by: Kiran Gopinath Bankar, et al.
Published: (2015-09-01)

De novo assembly and characterization of the global transcriptome for Rhyacionia leptotubula using Illumina paired-end sequencing.
by: Jia-Ying Zhu, et al.
Published: (2013-01-01)

De novo assembly and characterization of the transcriptome of seagrass Zostera marina using Illumina paired-end sequencing.
by: Fanna Kong, et al.
Published: (2014-01-01)

Joining Illumina paired-end reads for classifying phylogenetic marker sequences
by: Tsunglin Liu, et al.
Published: (2020-03-01)

Transcriptome Analysis of the Tadpole Shrimp (Triops longicaudatus) by Illumina Paired-End Sequencing: Assembly, Annotation, and Marker Discovery
by: Jiyeon Seong, et al.
Published: (2016-12-01)

Rapid development of microsatellite markers for Callosobruchus chinensis using Illumina paired-end sequencing.
by: Can-Xing Duan, et al.
Published: (2014-01-01)

De novo assembly, gene annotation and marker development using Illumina paired-end transcriptome sequences in celery (Apium graveolens L.).
by: Nan Fu, et al.
Published: (2013-01-01)

NucBreak: location of structural errors in a genome assembly by using paired-end Illumina reads
by: Ksenia Khelik, et al.
Published: (2020-02-01)

Binpairs: utilization of Illumina paired-end information for improving efficiency of taxonomic binning of metagenomic sequences.
by: Anirban Dutta, et al.
Published: (2014-01-01)

<it>De novo </it>assembly and characterization of root transcriptome using Illumina paired-end sequencing and development of cSSR markers in sweetpotato (<it>Ipomoea batatas</it>)
by: Huang Lifei, et al.
Published: (2010-12-01)

Improving 454 assembly by resolving ambiguous triad structures in the contig graph using Illumina paired-end data
by: Chien-JuLee, et al.
Published: (2011)

Transcriptome analysis of Houttuynia cordata Thunb. by Illumina paired-end RNA sequencing and SSR marker discovery.
by: Lin Wei, et al.
Published: (2014-01-01)

Rapid microsatellite identification from Illumina paired-end genomic sequencing in two birds and a snake.
by: Todd A Castoe, et al.
Published: (2012-01-01)

Correction: Rapid Microsatellite Identification from Illumina Paired-End Genomic Sequencing in Two Birds and a Snake.
by: Todd A Castoe, et al.
Published: (2015-01-01)

Characterization of the Kenaf (Hibiscus cannabinus) Global Transcriptome Using Illumina Paired-End Sequencing and Development of EST-SSR Markers.
by: Hui Li, et al.
Published: (2016-01-01)

Evaluating accuracy of species identification using Illumina paired-end sequences of 16S rDNAs by various computational tools
by: An ChenDeng, et al.
Published: (2015)

32 species validation of a new Illumina paired-end approach for the development of microsatellites.
by: Stacey L Lance, et al.
Published: (2013-01-01)

Characterization of the sesame (<it>Sesamum indicum </it>L.) global transcriptome using Illumina paired-end sequencing and development of EST-SSR markers
by: Lv Haixia, et al.
Published: (2011-09-01)

Characterization of Global Transcriptome Using Illumina Paired-End Sequencing and Development of EST-SSR Markers in Two Species of Gynostemma (Cucurbitaceae)
by: Yue-Mei Zhao, et al.
Published: (2015-11-01)

Clover: a clustering-oriented de novo assembler for Illumina sequences
by: Ming-Feng Hsieh, et al.
Published: (2020-11-01)

Improvement of De novo Assembly Using Paired-End Sequencing
by: Fang, Kuang Chung, et al.
Published: (2012)

A filtering method to generate high quality short reads using illumina paired-end technology.
by: A Murat Eren, et al.
Published: (2013-01-01)

Assembly of the Mitochondrial Genome in the Campanulaceae Family Using Illumina Low-Coverage Sequencing
by: Hyun-Oh Lee, et al.
Published: (2018-07-01)

Correction: A Filtering Method to Generate High Quality Short Reads Using Illumina Paired-End Technology
by: A. Murat Eren, et al.
Published: (2013-01-01)

Correction: A Filtering Method to Generate High Quality Short Reads Using Illumina Paired-End Technology.
by: A. Murat Eren, et al.
Published: (2013-01-01)

Transcriptome Profiling and Identification of Transcription Factors in Ramie (Boehmeria nivea L. Gaud) in Response to PEG Treatment, Using Illumina Paired-End Sequencing Technology
by: Xia An, et al.
Published: (2015-02-01)

Sequencing and de novo assembly of the Asian gypsy moth transcriptome using the Illumina platform
by: Fan Xiaojun, et al.

De novo assembly of middle-sized genome using MinION and Illumina sequencers
by: Ryuhei Minei, et al.
Published: (2018-09-01)

Sequencing and de novo assembly of the Asian gypsy moth transcriptome using the Illumina platform
by: Fan Xiaojun, et al.
Published: (2016-10-01)

De novo Assembly and Characterization of Cajanus scarabaeoides (L.) Thouars Transcriptome by Paired-End Sequencing
by: Deepti Nigam, et al.
Published: (2017-07-01)

Ultrahigh-Throughput Multiplexing and Sequencing of >500-Base-Pair Amplicon Regions on the Illumina HiSeq 2500 Platform
by: Johanna B. Holm, et al.
Published: (2019-02-01)

De novo Transcriptome Generation and Annotation for Two Korean Endemic Land Snails, Aegista chejuensis and Aegista quelpartensis, Using Illumina Paired-End Sequencing Technology
by: Se Won Kang, et al.
Published: (2016-03-01)

Development and validation of microsatellite markers for <it>Brachiaria ruziziensis</it> obtained by partial genome assembly of Illumina single-end reads
by: Silva Pedro IT, et al.
Published: (2013-01-01)

Genome-wide microsatellite identification in the fungus Anisogramma anomala using Illumina sequencing and genome assembly.
by: Guohong Cai, et al.
Published: (2013-01-01)

Assembly of Nitrospira bacterial genome with a hybrid approach using MinION and Illumina sequencing
Published: ()

Four methods of preparing mRNA 5' end libraries using the Illumina sequencing platform.
by: Ryuji J Machida, et al.
Published: (2014-01-01)

Viral Metagenomics: Analysis of Begomoviruses by Illumina High-Throughput Sequencing
by: Ali Idris, et al.
Published: (2014-03-01)

Transcriptome analysis by Illumina high-throughout paired-end sequencing reveals the complexity of differential gene expression during in vitro plantlet growth and flowering in Amaranthus tricolor L.
by: Shengcai Liu, et al.
Published: (2014-01-01)

Illumina short-read sequencing data, de novo assembly and annotations of the Drosophila nasuta nasuta genome
by: Stafny DSouza, et al.
Published: (2021-02-01)

Benchmarking hybrid assembly approaches for genomic analyses of bacterial pathogens using Illumina and Oxford Nanopore sequencing
by: Zhao Chen, et al.
Published: (2020-09-01)

Cannot write session to /tmp/vufind_sessions/sess_92uqdb54etf7g96ut72ut8fgqf