(Q33648397)

28 July 2017

title

Automated ensemble assembly and validation of microbial genomes (English)

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28 July 2017

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4

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28 July 2017

Sergey Koren

1

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Adam Phillippy

object named as

Adam M Phillippy

series ordinal

5

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Todd J Treangen

series ordinal

2

object named as

Todd J Treangen

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28 July 2017

Christopher M Hill

3

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28 July 2017

publication date

3 May 2014

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28 July 2017

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28 July 2017

volume

15

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28 July 2017

issue

1

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23 June 2019

page(s)

126

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describes a project that uses

28 July 2017

MIRA

object named as

MIRA

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

cites work

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21 June 2018

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Kraken: ultrafast metagenomic sequence classification using exact alignments

21 June 2018

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PhyloSift: phylogenetic analysis of genomes and metagenomes

21 June 2018

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Toward a statistically explicit understanding of de novo sequence assembly

21 June 2018

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Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans

21 June 2018

1 reference

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The MaSuRCA genome assembler

21 June 2018

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De novo likelihood-based measures for comparing genome assemblies

21 June 2018

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Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species

21 June 2018

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GAM-NGS: genomic assemblies merger for next generation sequencing

21 June 2018

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REAPR: a universal tool for genome assembly evaluation

21 June 2018

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21 June 2018

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21 June 2018

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QUAST: quality assessment tool for genome assemblies

21 June 2018

1 reference

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CGAL: computing genome assembly likelihoods

21 June 2018

1 reference

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Sequence assembly demystified

21 June 2018

1 reference

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MetAMOS: a modular and open source metagenomic assembly and analysis pipeline

21 June 2018

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ALE: a generic assembly likelihood evaluation framework for assessing the accuracy of genome and metagenome assemblies

21 June 2018

1 reference

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Reevaluating assembly evaluations with feature response curves: GAGE and assemblathons

21 June 2018

1 reference

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Ray Meta: scalable de novo metagenome assembly and profiling.

21 June 2018

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An integrated pipeline for de novo assembly of microbial genomes

21 June 2018

1 reference

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MetaVelvet: an extension of Velvet assembler to de novo metagenome assembly from short sequence reads

21 June 2018

1 reference

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Exploiting sparseness in de novo genome assembly

21 June 2018

1 reference

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SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing

21 June 2018

1 reference

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IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth

21 June 2018

1 reference

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Efficient de novo assembly of large genomes using compressed data structures

21 June 2018

1 reference

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GAGE: A critical evaluation of genome assemblies and assembly algorithms

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Accelerated Profile HMM Searches

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Graph accordance of next-generation sequence assemblies

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Interactive metagenomic visualization in a Web browser

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Efficient de novo assembly of single-cell bacterial genomes from short-read data sets

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Assemblathon 1: a competitive assessment of de novo short read assembly methods

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Classifying short genomic fragments from novel lineages using composition and homology.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

An integrated semiconductor device enabling non-optical genome sequencing

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Comparing de novo genome assembly: the long and short of it

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Ray: simultaneous assembly of reads from a mix of high-throughput sequencing technologies

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Ruffus: a lightweight Python library for computational pipelines

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

A computational genomics pipeline for prokaryotic sequencing projects

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Assembly algorithms for next-generation sequencing data

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Maximum likelihood genome assembly

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Parametric complexity of sequence assembly: theory and applications to next generation sequencing

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

ABySS: a parallel assembler for short read sequence data

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Real-time DNA sequencing from single polymerase molecules

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Accurate whole human genome sequencing using reversible terminator chemistry

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Velvet: algorithms for de novo short read assembly using de Bruijn graphs

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Genome assembly forensics: finding the elusive mis-assembly

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Minimus: a fast, lightweight genome assembler

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Genome sequencing in microfabricated high-density picolitre reactors

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Using the miraEST assembler for reliable and automated mRNA transcript assembly and SNP detection in sequenced ESTs

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Toward simplifying and accurately formulating fragment assembly

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Basic local alignment search tool

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Aggressive assembly of pyrosequencing reads with mates

21 June 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-15-126

Informed and automated k-mer size selection for genome assembly

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-15-126

A genomic distance based on MUM indicates discontinuity between most bacterial species and genera.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-15-126

Phymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-15-126

An extended genovo metagenomic assembler by incorporating paired-end information

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

Genovo: de novo assembly for metagenomes

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4030574

30 October 2018

Identifiers

DOI

10.1186/1471-2105-15-126

1 reference

journals/bmcbi/KorenTHPP14

28 July 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

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28 July 2017

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