Epi-Gene: An R-Package for Easy Pan-Genome Analysis.
The main aim of this study was to develop a set of functions that can analyze the genomic data with less time consumption and memory. Epi-gene is presented as a solution to large sequence file handling and computational time problems. It uses less time and less programming skills in order to work wi...
| Publicado en: | BioMed Research International pp. 1 - 9 |
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| Autores principales: | , , , , , , , , |
| Formato: | research tables/charts Journal Article |
| Publicado: |
Wiley-Blackwell
9/21/2021
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| Acceso en línea: | Ver este registro en EBSCOhost |
| fields | @attributes: recordID: 1 pdfLink: plink: https://search.ebscohost.com/login.aspx?direct=true&db=ccm&AN=152552113&site=ehost-live header: @attributes: shortDbName: ccm uiTerm: 152552113 longDbName: CINAHL Complete uiTag: AN controlInfo: bkinfo: dissinfo: jinfo: jid: 23146133 FT2T jtl: BioMed Research International issn: 23146133 maglogo: N pubinfo: dt: 9/21/2021 pid: 480 pub: Wiley-Blackwell place: Malden, Massachusetts artinfo: ui: 152552113 152552113 152552113 10.1155/2021/5585586 152552113 ppf: 1 ppct: 8 formats: fmt: @attributes: type: P tig: atl: Epi-Gene: An R-Package for Easy Pan-Genome Analysis. aug: au: Awan, Furqan Ali, Muhammad Muddassir Hamid, Muhammad Awan, Muhammad Huzair Mushtaq, Muhammad Hassan Kalsoom, Saeeda Ijaz, Muhammad Mehmood, Khalid Liu, Yongjie affil: Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China sug: subj: Epigenomics Time Factors Data Analysis, Statistical Computer Memory Human Genome Computers and Computerization Phylogenetics Software ab: The main aim of this study was to develop a set of functions that can analyze the genomic data with less time consumption and memory. Epi-gene is presented as a solution to large sequence file handling and computational time problems. It uses less time and less programming skills in order to work with a large number of genomes. In the current study, some features of the Epi-gene R-package were described and illustrated by using a dataset of the 14 Aeromonas hydrophila genomes. The joining, relabeling, and conversion functions were also included in this package to handle the FASTA formatted sequences. To calculate the subsets of core genes, accessory genes, and unique genes, various Epi-gene functions have been used. Heat maps and phylogenetic genome trees were also constructed. This whole procedure was completed in less than 30 minutes. This package can only work on Windows operating systems. Different functions from other packages such as dplyr and ggtree were also used that were available in R computing environment. pubtype: Academic Journal doctype: research tables/charts Journal Article ougenre: Article language: English refInfo: holdings: @attributes: islocal: N |
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