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FastTagger specifications
Information
Unique identifier | OMICS_19868 |
---|---|
Name | FastTagger |
Software type | Application/Script |
Interface | Command line interface |
Restrictions to use | None |
Operating system | Unix/Linux, Windows |
Programming languages | C++ |
Computer skills | Advanced |
Version | 1.0 |
Stability | Stable |
Maintained | Yes |
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Versioning
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Maintainer
- person_outline Guimei Liu
Publication for FastTagger
FastTagger: an efficient algorithm for genome-wide tag SNP selection using multi-marker linkage disequilibrium
FastTagger citations
(4)Developing a 670k genotyping array to tag ~2M SNPs across 24 horse breeds
[…] ction of genomic haplotypes in the 485 horses both within and across breeds. Tagging SNPs that reconstructed haplotypes across all 485 horses (inter-breed tag SNPs) were identified using the software FastTagger []. In total, 355,903 tagging SNPs were needed to reconstruct haplotypes present across all the horses in the cohort with a minor allele frequency (MAF) > 0.01 and tag-SNP r2 > 0.99. These […]
A powerful score based test statistic for detecting gene gene co association
[…] are []. Furthermore, there are many other methods have been recently proposed, including the weighted tag-SNP-set analytical method [], the CLONTagger method [], the diSNP selection method [] and the FastTagger method []. Meanwhile, it is inevitable to yield very noisy covariance matrices and face multiple testing problems once extending the proposed statistic to a large genome-wide scale, which s […]
ARG walker: inference of individual specific strengths of meiotic recombination hotspots by population genomics analysis
[…] ic strengths of the recombination hotspot located inside the 100-SNP window. For each hotspot, a profile of the estimated recombination strengths will be output. For the genotype data, we applied the FastTagger [] tool to select all tag SNPs with MAF higher than 0.3 from the HapMap Phase 3 data of JPT+CHB population. The minimal r2 was set to 0.9. As such we obtained 179,671 tag SNPs. The Python s […]
A primer to frequent itemset mining for bioinformatics
[…] lled tag SNPs that are subsets sufficient to infer the other SNPs from. Common methods suffer from various problems with larger chromosomes, thus becoming very memory-intensive and time-consuming []. FastTagger [] incorporated frequent itemset mining to overcome several of these problems. […]
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