REAPR: a universal tool for genome assembly evaluation (Q21999526)

24 June 2017

REAPR: a universal tool for genome assembly evaluation (English)

1 reference

24 June 2017

4

Chris Newbold

Chris

Newbold

1 reference

24 June 2017

1

Martin Hunt

Martin

Hunt

1 reference

24 June 2017

6

Thomas D Otto

Thomas D

Otto

1 reference

24 June 2017

5

Matthew Berriman

Matthew

Berriman

1 reference

24 June 2017

3

Mandy Sanders

Mandy

Sanders

1 reference

28 August 2022

Taisei Kikuchi

2

Taisei

Kikuchi

1 reference

PubMed ID

23710727

24 June 2017

language of work or name

English

0 references

publication date

27 May 2013

1 reference

24 June 2017

1 reference

24 June 2017

14

1 reference

24 June 2017

5

1 reference

24 June 2017

R47

1 reference

https://scigraph.springernature.com/pub.10.1186/gb-2013-14-5-r47

24 June 2017

0 references

cites work

The Genomes OnLine Database (GOLD) v.4: status of genomic and metagenomic projects and their associated metadata

1 reference

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Repetitive DNA and next-generation sequencing: computational challenges and solutions

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

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

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Genome sequence of the human malaria parasite Plasmodium falciparum

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Initial sequencing and analysis of the human genome

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

The Sequence Alignment/Map format and SAMtools

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data

19 March 2017

1 reference

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A systematic map of genetic variation in Plasmodium falciparum

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

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

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Circos: an information aesthetic for comparative genomics

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

High-quality draft assemblies of mammalian genomes from massively parallel sequence data

7 April 2017

1 reference

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Scaffolding pre-assembled contigs using SSPACE

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

ACT: the Artemis Comparison Tool

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

SSAHA: a fast search method for large DNA databases

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

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

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Reevaluating assembly evaluations with feature response curves: GAGE and assemblathons

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Genome interpretation and assembly-recent progress and next steps

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Toward almost closed genomes with GapFiller

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

GAGE: A critical evaluation of genome assemblies and assembly algorithms

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

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

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Rapid whole genome optical mapping of Plasmodium falciparum

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

BamTools: a C++ API and toolkit for analyzing and managing BAM files

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Tabix: fast retrieval of sequence features from generic TAB-delimited files

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Limitations of next-generation genome sequence assembly

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Genomics. Genome project standards in a new era of sequencing

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Genome assembly forensics: finding the elusive mis-assembly

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Patterns of gene recombination shape var gene repertoires in Plasmodium falciparum: comparisons of geographically diverse isolates

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

CGAL: computing genome assembly likelihoods

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

Genome sequence of a recently emerged, highly transmissible, multi-antibiotic- and antiseptic-resistant variant of methicillin-resistant Staphylococcus aureus, sequence type 239 (TW).

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3798757

AcePrimer: automation of PCR primer design based on gene structure.

30 May 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2FGB-2013-14-5-R47

21 January 2018

Identifiers

DOI

10.1186/GB-2013-14-5-R47

1 reference

PubMed ID

23710727

Dimensions Publication ID

24 June 2017

1029209409

0 references

OpenCitations bibliographic resource ID

1719350

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1 reference

PubMed ID

23710727