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gimap
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", "1.0.3")
Attach the package and use:
library("gimap")
Maintained by
Candace Savonen
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
10.32614/CRAN.package.gimap . https://github.com/FredHutch/gimap/issues . https://github.com/FredHutch/gimap . gimap results . gimap.pdf . gimap for Timepoint Experiment . gimap for Treatment Experiment . gimap_1.0.3.tar.gz . gimap_1.0.3.zip . gimap_1.0.3.zip . gimap_1.0.3.zip . gimap_1.0.3.tgz . gimap_1.0.3.tgz . gimap_1.0.3.tgz . gimap_1.0.3.tgz . gimap_1.0.3.tgz . gimap_1.0.3.tgz . gimap archive . https://CRAN.R-project.org/package=gimap .
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 1.0.3, https://cran.r-project.org/web/packages/gimap. Accessed 29 Mar. 2025.
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