Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation (Q33622593)

28 July 2017

title

Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation (English)

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28 July 2017

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Jason R Miller

4

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Sergey Koren

object named as

Sergey Koren

series ordinal

1

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Adam Phillippy

object named as

Adam M Phillippy

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6

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Brian P Walenz

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2

object named as

Brian P Walenz

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28 July 2017

5

Nicholas H Bergman

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28 July 2017

Konstantin Berlin

3

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28 July 2017

publication date

15 March 2017

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28 July 2017

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28 July 2017

volume

27

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28 July 2017

issue

5

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28 July 2017

page(s)

722-736

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de novo assembly and population genomic survey of natural yeast isolates with the Oxford Nanopore MinION sequencer

28 July 2017

cites work

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14 July 2018

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Single-molecule sequencing and chromatin conformation capture enable de novo reference assembly of the domestic goat genome

14 July 2018

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14 July 2018

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An improved genome assembly uncovers prolific tandem repeats in Atlantic cod

14 July 2018

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Phased diploid genome assembly with single-molecule real-time sequencing.

14 July 2018

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DBG2OLC: Efficient Assembly of Large Genomes Using Long Erroneous Reads of the Third Generation Sequencing Technologies

14 July 2018

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Contiguous and accurate de novo assembly of metazoan genomes with modest long read coverage

14 July 2018

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Increased plasmid copy number is essential for Yersinia T3SS function and virulence.

14 July 2018

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Long-read sequencing and de novo assembly of a Chinese genome

14 July 2018

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Mash: fast genome and metagenome distance estimation using MinHash

14 July 2018

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Evaluation of hybrid and non-hybrid methods for de novo assembly of nanopore reads

14 July 2018

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Minimap and miniasm: fast mapping and de novo assembly for noisy long sequences

14 July 2018

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Long-read sequence assembly of the gorilla genome

14 July 2018

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Haplotyping germline and cancer genomes with high-throughput linked-read sequencing

14 July 2018

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hybridSPAdes: an algorithm for hybrid assembly of short and long reads

14 July 2018

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FlyBase: establishing a Gene Group resource for Drosophila melanogaster

14 July 2018

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Oxford Nanopore sequencing, hybrid error correction, and de novo assembly of a eukaryotic genome

14 July 2018

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Bandage: interactive visualization of de novo genome assemblies

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

A complete bacterial genome assembled de novo using only nanopore sequencing data

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Assembling large genomes with single-molecule sequencing and locality-sensitive hashing

14 July 2018

1 reference

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Long-read, whole-genome shotgun sequence data for five model organisms

14 July 2018

1 reference

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Improved data analysis for the MinION nanopore sequencer

14 July 2018

1 reference

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The Release 6 reference sequence of the Drosophila melanogaster genome.

14 July 2018

1 reference

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One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

proovread: large-scale high-accuracy PacBio correction through iterative short read consensus

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

High-throughput genome scaffolding from in vivo DNA interaction frequency

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Chromosome-scale scaffolding of de novo genome assemblies based on chromatin interactions

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Whole-genome haplotype reconstruction using proximity-ligation and shotgun sequencing

14 July 2018

1 reference

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Exploring variation-aware contig graphs for (comparative) metagenomics using MaryGold

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Reducing assembly complexity of microbial genomes with single-molecule sequencing

14 July 2018

1 reference

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Optimal assembly for high throughput shotgun sequencing

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Characterizing and measuring bias in sequence data

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

14 July 2018

1 reference

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Rapid genome mapping in nanochannel arrays for highly complete and accurate de novo sequence assembly of the complex Aegilops tauschii genome

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

PBSIM: PacBio reads simulator--toward accurate genome assembly

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Hybrid error correction and de novo assembly of single-molecule sequencing reads

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

The bonobo genome compared with the chimpanzee and human genomes

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

GAGE: A critical evaluation of genome assemblies and assembly algorithms

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Bambus 2: scaffolding metagenomes

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

A flexible and efficient template format for circular consensus sequencing and SNP detection

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

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

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Real-time DNA sequencing from single polymerase molecules

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

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

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Genome assembly forensics: finding the elusive mis-assembly

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

The fragment assembly string graph

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Finishing the euchromatic sequence of the human genome

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Quality assessment of the human genome sequence

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Whole-genome shotgun assembly and comparison of human genome assemblies

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Versatile and open software for comparing large genomes

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

The Genome Sequence of the Malaria Mosquito Anopheles gambiae

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Efficiently detecting polymorphisms during the fragment assembly process

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

SSAHA: a fast search method for large DNA databases

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

A whole-genome assembly of Drosophila

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Base-calling of automated sequencer traces using phred. II. Error probabilities

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

Min-Wise Independent Permutations

14 July 2018

1 reference

https://api.crossref.org/works/10.1101%2FGR.215087.116

Aggressive assembly of pyrosequencing reads with mates

21 January 2018

1 reference

https://api.crossref.org/works/10.1101%2FGR.215087.116

AnO(ND) difference algorithm and its variations

21 January 2018

1 reference

https://api.crossref.org/works/10.1101%2FGR.215087.116

LoRDEC: accurate and efficient long read error correction.

21 January 2018

1 reference

https://api.crossref.org/works/10.1101%2FGR.215087.116

DNA sequencing with nanopores

21 January 2018

1 reference

https://api.crossref.org/works/10.1101%2FGR.215087.116

Assessing the quality of the DNA sequence from the Human Genome Project

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5411767

30 October 2018

Identifiers

DOI

10.1101/GR.215087.116

1 reference

28 July 2017

1 reference

28 July 2017

1 reference