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Toward almost closed genomes with GapFiller

Overview of attention for article published in Genome Biology (Online Edition), January 2012
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About this Attention Score

  • In the top 25% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (92nd percentile)
  • Good Attention Score compared to outputs of the same age and source (77th percentile)

Mentioned by

twitter
21 tweeters
patent
2 patents
wikipedia
1 Wikipedia page

Citations

dimensions_citation
828 Dimensions

Readers on

mendeley
589 Mendeley
citeulike
7 CiteULike
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Title
Toward almost closed genomes with GapFiller
Published in
Genome Biology (Online Edition), January 2012
DOI 10.1186/gb-2012-13-6-r56
Pubmed ID
Authors

Marten Boetzer, Walter Pirovano

Abstract

De novo assembly is a commonly used application of next-generation sequencing experiments. The ultimate goal is to puzzle millions of reads into one complete genome, although draft assemblies usually result in a number of gapped scaffold sequences. In this paper we propose an automated strategy, called GapFiller, to reliably close gaps within scaffolds using paired reads. The method shows good results on both bacterial and eukaryotic datasets, allowing only few errors. As a consequence, the amount of additional wetlab work needed to close a genome is drastically reduced. The software is available at http://www.baseclear.com/bioinformatics-tools/.

Twitter Demographics

The data shown below were collected from the profiles of 21 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 589 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 17 3%
Brazil 6 1%
Australia 3 <1%
France 3 <1%
Spain 3 <1%
United Kingdom 3 <1%
Russia 2 <1%
Belgium 2 <1%
Denmark 2 <1%
Other 15 3%
Unknown 533 90%

Demographic breakdown

Readers by professional status Count As %
Researcher 166 28%
Student > Ph. D. Student 150 25%
Student > Master 78 13%
Student > Doctoral Student 33 6%
Student > Bachelor 31 5%
Other 87 15%
Unknown 44 7%
Readers by discipline Count As %
Agricultural and Biological Sciences 332 56%
Biochemistry, Genetics and Molecular Biology 112 19%
Computer Science 30 5%
Immunology and Microbiology 21 4%
Medicine and Dentistry 10 2%
Other 24 4%
Unknown 60 10%

Attention Score in Context

This research output has an Altmetric Attention Score of 17. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 12 March 2018.
All research outputs
#1,654,891
of 21,108,726 outputs
Outputs from Genome Biology (Online Edition)
#1,561
of 4,008 outputs
Outputs of similar age
#10,180
of 141,841 outputs
Outputs of similar age from Genome Biology (Online Edition)
#3
of 9 outputs
Altmetric has tracked 21,108,726 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 92nd percentile: it's in the top 10% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 4,008 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 27.1. This one has gotten more attention than average, scoring higher than 61% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 141,841 tracked outputs that were published within six weeks on either side of this one in any source. This one has done particularly well, scoring higher than 92% of its contemporaries.
We're also able to compare this research output to 9 others from the same source and published within six weeks on either side of this one. This one has scored higher than 6 of them.