gimap
Calculate Genetic Interactions for Paired CRISPR Targets
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 are the 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.
- Version1.0.1
- R versionR (≥ 3.5.0)
- LicenseGPL-3
- Needs compilation?No
- Last release02/03/2025
Documentation
Team
Candace Savonen
MaintainerShow author detailsDaniel Grosso
Show author detailsRolesAuthorAlice Berger
Show author detailsRolesAuthorPhoebe Parrish
Show author detailsRolesAuthorHoward Baek
Show author detailsRolesAuthorSiobhan O'Brien
Show author detailsRolesAuthorKate Isaac
Show author detailsRolesAuthor
Insights
Last 30 days
This package has been downloaded 556 times in the last 30 days. More downloads than an obscure whitepaper, but not enough to bring down any servers. A solid effort! The following heatmap shows the distribution of downloads per day. Yesterday, it was downloaded 11 times.
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Last 365 days
This package has been downloaded 736 times in the last 365 days. More downloads than an obscure whitepaper, but not enough to bring down any servers. A solid effort! The day with the most downloads was Feb 20, 2025 with 55 downloads.
The following line graph shows the downloads per day. You can hover over the graph to see the exact number of downloads per day.
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Dependencies
- Imports15 packages
- Suggests4 packages