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Mendeley readers
Attention Score in Context
| Title |
PnpProbs: a better multiple sequence alignment tool by better handling of guide trees
|
|---|---|
| Published in |
BMC Bioinformatics, August 2016
|
| DOI | 10.1186/s12859-016-1121-7 |
| Pubmed ID | |
| Authors |
Yongtao Ye, Tak-Wah Lam, Hing-Fung Ting |
| Abstract |
This paper describes a new MSA tool called PnpProbs, which constructs better multiple sequence alignments by better handling of guide trees. It classifies sequences into two types: normally related and distantly related. For normally related sequences, it uses an adaptive approach to construct the guide tree needed for progressive alignment; it first estimates the input's discrepancy by computing the standard deviation of their percent identities, and based on this estimate, it chooses the better method to construct the guide tree. For distantly related sequences, PnpProbs abandons the guide tree and uses instead some non-progressive alignment method to generate the alignment. To evaluate PnpProbs, we have compared it with thirteen other popular MSA tools, and PnpProbs has the best alignment scores in all but one test. We have also used it for phylogenetic analysis, and found that the phylogenetic trees constructed from PnpProbs' alignments are closest to the model trees. By combining the strength of the progressive and non-progressive alignment methods, we have developed an MSA tool called PnpProbs. We have compared PnpProbs with thirteen other popular MSA tools and our results showed that our tool usually constructed the best alignments. |
X Demographics
The data shown below were collected from the profiles of 2 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Taiwan | 1 | 50% |
| Unknown | 1 | 50% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 1 | 50% |
| Members of the public | 1 | 50% |
Mendeley readers
The data shown below were compiled from readership statistics for 19 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United Kingdom | 1 | 5% |
| Unknown | 18 | 95% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Master | 5 | 26% |
| Student > Bachelor | 4 | 21% |
| Professor | 2 | 11% |
| Researcher | 2 | 11% |
| Student > Ph. D. Student | 2 | 11% |
| Other | 1 | 5% |
| Unknown | 3 | 16% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 6 | 32% |
| Biochemistry, Genetics and Molecular Biology | 5 | 26% |
| Computer Science | 3 | 16% |
| Medicine and Dentistry | 1 | 5% |
| Chemistry | 1 | 5% |
| Other | 0 | 0% |
| Unknown | 3 | 16% |
Attention Score in Context
This research output has an Altmetric Attention Score of 1. 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 03 September 2016.
All research outputs
#18,469,995
of 22,886,568 outputs
Outputs from BMC Bioinformatics
#6,330
of 7,298 outputs
Outputs of similar age
#258,295
of 337,459 outputs
Outputs of similar age from BMC Bioinformatics
#106
of 136 outputs
Altmetric has tracked 22,886,568 research outputs across all sources so far. This one is in the 11th percentile – i.e., 11% of other outputs scored the same or lower than it.
So far Altmetric has tracked 7,298 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 5.4. This one is in the 5th percentile – i.e., 5% 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 337,459 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 12th percentile – i.e., 12% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 136 others from the same source and published within six weeks on either side of this one. This one is in the 8th percentile – i.e., 8% of its contemporaries scored the same or lower than it.