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GenomeTester4: a toolkit for performing basic set operations - union, intersection and complement on k-mer lists

Overview of attention for article published in Giga Science, December 2015
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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 (86th percentile)

Mentioned by

twitter
9 X users
patent
1 patent
peer_reviews
1 peer review site
facebook
1 Facebook page
googleplus
1 Google+ user

Citations

dimensions_citation
34 Dimensions

Readers on

mendeley
59 Mendeley
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Title
GenomeTester4: a toolkit for performing basic set operations - union, intersection and complement on k-mer lists
Published in
Giga Science, December 2015
DOI 10.1186/s13742-015-0097-y
Pubmed ID
Authors

Lauris Kaplinski, Maarja Lepamets, Maido Remm

Abstract

K-mer-based methods of genome analysis have attracted great interest because they do not require genome assembly and can be performed directly on sequencing reads. Many analysis tasks require one to compare k-mer lists from different sequences to find words that are either unique to a specific sequence or common to many sequences. However, no stand-alone k-mer analysis tool currently allows one to perform these algebraic set operations. We have developed the GenomeTester4 toolkit, which contains a novel tool GListCompare for performing union, intersection and complement (difference) set operations on k-mer lists. We provide examples of how these general operations can be combined to solve a variety of biological analysis tasks. GenomeTester4 can be used to simplify k-mer list manipulation for many biological analysis tasks.

X Demographics

X Demographics

The data shown below were collected from the profiles of 9 X users who shared this research output. Click here to find out more about how the information was compiled.
Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 59 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 59 100%

Demographic breakdown

Readers by professional status Count As %
Researcher 16 27%
Student > Bachelor 11 19%
Student > Master 10 17%
Student > Ph. D. Student 6 10%
Student > Postgraduate 5 8%
Other 7 12%
Unknown 4 7%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 18 31%
Agricultural and Biological Sciences 14 24%
Computer Science 8 14%
Medicine and Dentistry 6 10%
Engineering 2 3%
Other 5 8%
Unknown 6 10%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 11. 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 25 February 2021.
All research outputs
#3,343,491
of 25,374,917 outputs
Outputs from Giga Science
#653
of 1,168 outputs
Outputs of similar age
#52,696
of 395,182 outputs
Outputs of similar age from Giga Science
#14
of 19 outputs
Altmetric has tracked 25,374,917 research outputs across all sources so far. Compared to these this one has done well and is in the 86th percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 1,168 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 21.8. This one is in the 43rd percentile – i.e., 43% of its peers scored the same or lower than it.
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 395,182 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 86% of its contemporaries.
We're also able to compare this research output to 19 others from the same source and published within six weeks on either side of this one. This one is in the 26th percentile – i.e., 26% of its contemporaries scored the same or lower than it.