Pajuste, FD., Remm, M. GeneToCN: an alignment-free method for gene copy number estimation directly from next-generation sequencing reads. Sci Rep 13, 17765 (2023). https://doi.org/10.1038/s41598-023-44636-z
GeneToCN: an alignment-free method for gene copy number estimation directly from next-generation sequencing reads. Sci Rep 13, 17765 (2023). doi.org/10.1038/s41598- 首发公号:深圳国家基因库大数据平台 发布于 2025-03-18 14:20・湖北 高通量测序 拷贝数 赞同1添加评论 分享喜欢...
xx xx xxxx Fanny-Dhelia Pajuste1, Lauris Kaplinski1, Märt Möls1,2, Tarmo Puurand1, Maarja Lepamets1 & Maido Remm1 We have developed a computational method that counts the frequencies of unique k-mers in FASTQ- formatted genome data and uses this information to infer the genotypes of...
A larger amount of sequence data in private and public databases produced by next-generation sequencing put new challenges due to limitation associated with the alignment-based method for sequence comparison. So, there is a high need for faster sequence analysis algorithms. In this study, we develo...
The intuition behind the method is the substraction of systematic biases or errors present in a cohort in order to single out real mutations. We evaluated its precision on targeted sequencing data generated by a PacBio sequencer.Getting helpFor any information or help running MICADo, you can get...
Therefore, we developed a novel alignment-free method of sequence mapping that is fast and accurate. Results We present a new mapper called S-conLSH that uses Spaced context based Locality Sensitive Hashing. With multiple spaced patterns, S-conLSH facilitates a gapped mapping of noisy long reads...
4A). Figure 4B is the phylogenetic tree of the 146 complete papillomavirus genomes constructed by the alignment-based method Clustal W. Both trees display identical topology, thus reinforcing the validity of TreeWave method. Fig. 4 Phylogenetic tree of 146 whole human papillomavirus complete genome ...
In the study at hand, we developed GSP-based features named Z-Curve Genomic Cepstral Coefficients (ZCGCC), as an alignment-free method that could be applied for the classification of pathogenic viruses. To evaluate the developed features, we extracted the genomic sequences of twenty six pathogeni...
Using our method, these 88 sequences are clustered correctly into 19 groups: Primates, Proboscidea, Carnivora, Hyracoidea, Insectivora, Columbiformes, Perissodactyla, Testudines, Salmoniformes, Cypriniformes, Diprotodontia, Galliformes, Passeriformes, Anseriformes, Sirenia, Rodentia, Anura, Gadiformes ...
28. A method of profiling an object surface using an alignment-free interferometer, comprising the steps of: directing a beam from a radiation source along a first path towards a beamsplitter; dividing said beam at said beamsplitter into a translated beam passing through said beamsplitter along ...