This paper deals with the problem of recreating horizontal alignments of existing railway lines.The main objective is to propose a simple method for automatically obtaining optimized recreated alignments located as cl...This paper deals with the problem of recreating horizontal alignments of existing railway lines.The main objective is to propose a simple method for automatically obtaining optimized recreated alignments located as close as possible to an existing one.Based on a previously defined geometric model,two different constrained optimization problems are formulated.The first problem uses only the information provided by a set of points representing the track centerline while the second one also considers additional data about the existing alignment.The proposed methodology consists of a two-stage process in which both problems are solved consecutively using numerical techniques.The main results obtained applying this methodology are presented to show its performance and to prove its practical usefulness:an academic example used to compare with other methods,and a case study of a railway section located in Parga(Spain)in which the geometry of its horizontal alignment is successfully recovered.展开更多
Creating a multi-gene alignment matrix for phylogenetic analysis using organelle genomes involves aligning single-gene datasets manually,a process that can be time-consuming and prone to errors.The HomBlocks pipeline ...Creating a multi-gene alignment matrix for phylogenetic analysis using organelle genomes involves aligning single-gene datasets manually,a process that can be time-consuming and prone to errors.The HomBlocks pipeline has been created to eliminate the inaccuracies arising from manual operations.The processing of a large number of sequences,however,remains a time-consuming task.To conquer this challenge,we develop a speedy and efficient method called Organelle Genomes for Phylogenetic Analysis(ORPA).ORPA can quickly generate multiple sequence alignments for whole-genome comparisons by parsing the result files of NCBI BLAST,completing the task just in 1 min.With increasing data volume,the efficiency of ORPA is even more pronounced,over 300 times faster than HomBlocks in aligning 60 high-plant chloroplast genomes.The phylogenetic tree outputs from ORPA are equivalent to HomBlocks,indicating its outstanding efficiency.Due to its speed and accuracy,ORPA can identify species-level evolutionary conflicts,providing valuable insights into evolutionary cognition.展开更多
基金founded by project TED2021129324B-I00 of the Ministerio de Ciencia e Innovación(Spain)and NextGenerationEU(European Union)the Collaboration Agreement between Consellería de Educación,Formación Profesional e Universidades(Xunta de Galicia,Spain)and Universidade de Santiago de Compostela(Spain)which regulates the Specialization Campus Campus Terra under Grant number 2022-PU014support given by Xunta de Galicia(Spain)by means of the research projects 2023 GPC GI-2084 ED431B2023/17 and GRC GI-1563-ED431C 2021/15,respectively.
文摘This paper deals with the problem of recreating horizontal alignments of existing railway lines.The main objective is to propose a simple method for automatically obtaining optimized recreated alignments located as close as possible to an existing one.Based on a previously defined geometric model,two different constrained optimization problems are formulated.The first problem uses only the information provided by a set of points representing the track centerline while the second one also considers additional data about the existing alignment.The proposed methodology consists of a two-stage process in which both problems are solved consecutively using numerical techniques.The main results obtained applying this methodology are presented to show its performance and to prove its practical usefulness:an academic example used to compare with other methods,and a case study of a railway section located in Parga(Spain)in which the geometry of its horizontal alignment is successfully recovered.
基金supported by the National Key R&D Program of China(2018YFA0903200)Science Technology and Innovation Commission of Shenzhen Municipality of China(ZDSYS 20200811142605017)It was also supported by Innovation Program of Chinese Academy of Agricultural Sciences and the Elite Young Scientists Program of CAAS.
文摘Creating a multi-gene alignment matrix for phylogenetic analysis using organelle genomes involves aligning single-gene datasets manually,a process that can be time-consuming and prone to errors.The HomBlocks pipeline has been created to eliminate the inaccuracies arising from manual operations.The processing of a large number of sequences,however,remains a time-consuming task.To conquer this challenge,we develop a speedy and efficient method called Organelle Genomes for Phylogenetic Analysis(ORPA).ORPA can quickly generate multiple sequence alignments for whole-genome comparisons by parsing the result files of NCBI BLAST,completing the task just in 1 min.With increasing data volume,the efficiency of ORPA is even more pronounced,over 300 times faster than HomBlocks in aligning 60 high-plant chloroplast genomes.The phylogenetic tree outputs from ORPA are equivalent to HomBlocks,indicating its outstanding efficiency.Due to its speed and accuracy,ORPA can identify species-level evolutionary conflicts,providing valuable insights into evolutionary cognition.
