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gimap  

Calculate Genetic Interactions for Paired CRISPR Targets
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("gimap", "1.1.1")



Attach the package and use:
library("gimap")
Maintained by
Candace Savonen
[Scholar Profile | Author Map]
First Published: 2025-02-18
Latest Update: 2025-02-18
Description:
Helps find meaningful patterns in complex genetic experiments. First gimap takes data from paired CRISPR (Clustered regularly interspaced short palindromic repeats) screens that has been pre-processed to counts table of paired gRNA (guide Ribonucleic Acid) reads. The input data will have cell counts for how well cells grow (or don't grow) when different genes or pairs of genes are disabled. The output of the 'gimap' package is genetic interaction scores which arethe distance between the observed CRISPR score and the expected CRISPR score. The expected CRISPR scores are what we expect for the CRISPR values to be for two unrelated genes. The further away an observed CRISPR score is from its expected score the more we suspect genetic interaction. The work in this package is based off of original research from the Alice Berger lab at Fred Hutchinson Cancer Center (2021) <doi:10.1016/j.celrep.2021.109597>.
How to cite:
Candace Savonen (2025). gimap: Calculate Genetic Interactions for Paired CRISPR Targets. R package version 1.1.1, https://cran.r-project.org/web/packages/gimap. Accessed 04 May. 2025.
Previous versions and publish date:
1.0.1 (2025-02-03 12:50), 1.0.2 (2025-02-19 00:40), 1.0.3 (2025-03-07 21:50)
Other packages that cited gimap R package
View gimap citation profile
Other R packages that gimap depends, imports, suggests or enhances
Complete documentation for gimap
Functions, R codes and Examples using the gimap R package
Full gimap package functions and examples
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