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CSESA  

CRISPR-Based Salmonella Enterica Serotype Analyzer
View on CRAN: Click here


Download and install CSESA package within the R console
Install from CRAN:
install.packages("CSESA")

Install from Github:
library("remotes")
install_github("cran/CSESA")

Install by package version:
library("remotes")
install_version("CSESA", "1.2.0")



Attach the package and use:
library("CSESA")
Maintained by
Xia Zhang
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2018-06-15
Latest Update: 2019-03-03
Description:
Salmonella enterica is a major cause of bacterial food-borne disease worldwide. Serotype identification is the most commonly used typing method to characterize Salmonella isolates. However, experimental serotyping needs great cost on manpower and resources. Recently, we found that the newly incorporated spacer in the clustered regularly interspaced short palindromic repeat (CRISPR) could serve as an effective marker for typing of Salmonella. It was further revealed by Li et. al (2014) that recognized types based on the combination of two newly incorporated spacer in both CRISPR loci showed high accordance with serotypes. Here, we developed an R package 'CSESA' to predict the serotype based on this finding. Considering it
How to cite:
Xia Zhang (2018). CSESA: CRISPR-Based Salmonella Enterica Serotype Analyzer. R package version 1.2.0, https://cran.r-project.org/web/packages/CSESA
Previous versions and publish date:
1.0.4 (2018-06-15 17:26), 1.1.0 (2018-09-24 17:10), 1.1.1 (2018-09-29 09:00)
Other packages that cited CSESA R package
View CSESA citation profile
Other R packages that CSESA depends, imports, suggests or enhances
Functions, R codes and Examples using the CSESA R package
Some associated functions: CSESA . FindSerotype . GetAllNewSpacers . GetNewSpacer . GetNewSpacerCode . GetReverseComplement . GetStr . PCR . ReadInFile . WGS . 
Some associated R codes: CSESA.R .  Full CSESA package functions and examples
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