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SSHAARP
View on CRAN: Click
here
Download and install SSHAARP package within the R console
Install from CRAN:
install.packages("SSHAARP")
Install from Github:
library("remotes")
install_github("cran/SSHAARP")
Install by package version:
library("remotes")
install_version("SSHAARP", "1.1.0")
Attach the package and use:
library("SSHAARP")
Maintained by
Livia Tran
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2020-04-27
Latest Update: 2021-09-17
Description:
Processes amino acid alignments produced by the 'IPD-IMGT/HLA (Immuno Polymorphism-ImMunoGeneTics/Human Leukocyte Antigen) Database' to identify user-defined amino acid residue motifs shared across HLA alleles, and calculates the frequencies of those motifs based on HLA allele frequency data. 'SSHAARP' (Searching Shared HLA Amino Acid Residue Prevalence) uses 'Generic Mapping Tools (GMT)' software and the 'GMT' R package to generate global frequency heat maps that illustrate the distribution of each user-defined map around the globe. 'SSHAARP' analyzes the allele frequency data described by Solberg et al. (2008) <doi:10.1016/j.humimm.2008.05.001>, a global set of 497 population samples from 185 published datasets, representing 66,800 individuals total.
How to cite:
Livia Tran (2020). SSHAARP: Searching Shared HLA Amino Acid Residue Prevalence. R package version 1.1.0, https://cran.r-project.org/web/packages/SSHAARP
Other packages that cited SSHAARP R package
View SSHAARP citation profile
Other R packages that SSHAARP depends,
imports, suggests or enhances
Functions, R codes and Examples using
the SSHAARP R package
Some associated functions: AA_atlas . BLAASD . IMGTprotalignments . PALM . checkMotif . dataSubset . findMotif . solberg_dataset .
Some associated R codes: BLAASD.R . PALM.R . checkMotif.R . data.R . dataSubset.R . findMotif.R . Full SSHAARP package functions and examples
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