Quake: quality-aware detection and correction of sequencing errors (Q35167233)

6 August 2017

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title

Quake: quality-aware detection and correction of sequencing errors (English)

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6 August 2017

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6 August 2017

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6 August 2017

David R Kelley

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6 August 2017

29 November 2010

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6 August 2017

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6 August 2017

11

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6 August 2017

R116

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6 August 2017

11

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PubMed ID

21114842

describes a project that uses

6 August 2017

Bayes' theorem

1 reference

18 June 2022

https://europepmc.org/article/PMC/3156955

based on heuristic

inferred from PubMed Central ID database lookup

MUMmer

object named as

MUMmer

1 reference

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

exact match

https://scigraph.springernature.com/pub.10.1186/gb-2010-11-11-r116

0 references

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13 July 2018

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13 July 2018

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A parallel algorithm for error correction in high-throughput short-read data on CUDA-enabled graphics hardware

13 July 2018

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Correction of sequencing errors in a mixed set of reads

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Recount: expectation maximization based error correction tool for next generation sequencing data

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Improving de novo sequence assembly using machine learning and comparative genomics for overlap correction

13 July 2018

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De novo assembly of human genomes with massively parallel short read sequencing

13 July 2018

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A comprehensive catalogue of somatic mutations from a human cancer genome

13 July 2018

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Model-based quality assessment and base-calling for second-generation sequencing data

13 July 2018

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The impact of retrotransposons on human genome evolution

13 July 2018

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Improved base calling for the Illumina Genome Analyzer using machine learning strategies

13 July 2018

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Accurate determination of microbial diversity from 454 pyrosequencing data

13 July 2018

1 reference

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BayesCall: A model-based base-calling algorithm for high-throughput short-read sequencing

13 July 2018

1 reference

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SHREC: a short-read error correction method

13 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

The Sequence Alignment/Map format and SAMtools

13 July 2018

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The first Korean genome sequence and analysis: full genome sequencing for a socio-ethnic group

13 July 2018

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Efficient frequency-based de novo short-read clustering for error trimming in next-generation sequencing

13 July 2018

1 reference

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How to map billions of short reads onto genomes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

SNP detection for massively parallel whole-genome resequencing

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

13 July 2018

1 reference

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ABySS: a parallel assembler for short read sequence data

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Finding optimal threshold for correction error reads in DNA assembling

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Probabilistic base calling of Solexa sequencing data

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Next-generation DNA sequencing

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Mapping short DNA sequencing reads and calling variants using mapping quality scores

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Alta-Cyclic: a self-optimizing base caller for next-generation sequencing

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

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

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

ALLPATHS: de novo assembly of whole-genome shotgun microreads

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Adjust quality scores from alignment and improve sequencing accuracy

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Versatile and open software for comparing large genomes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Automated correction of genome sequence errors

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Correcting errors in shotgun sequences.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

An Exponential Dispersion Model for the Distribution of Human Single Nucleotide Polymorphisms

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

ARACHNE: a whole-genome shotgun assembler

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

An Eulerian path approach to DNA fragment assembly

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Toward simplifying and accurately formulating fragment assembly

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Reptile: representative tiling for short read error correction.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

De novo fragment assembly with short mate-paired reads: Does the read length matter?

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3156955

Genome 10K: a proposal to obtain whole-genome sequence for 10,000 vertebrate species

27 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2FGB-2010-11-11-R116

High-throughput gene mapping in Caenorhabditis elegans

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2FGB-2010-11-11-R116

21 January 2018

1 reference

https://pubmed.ncbi.nlm.nih.gov/21114842

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Deep sequencing of a genetically heterogeneous sample: local haplotype reconstruction and read error correction

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21114842

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/GB-2010-11-11-R116

1 reference

PubMed ID

21114842

Dimensions Publication ID

6 August 2017

0 references

1 reference

6 August 2017

1 reference

PubMed ID

21114842