https://github.com/bernatgel/findfocals
A small R package to find focal genomic gains and losses in SNP array data
Science Score: 26.0%
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Low similarity (6.8%) to scientific vocabulary
Repository
A small R package to find focal genomic gains and losses in SNP array data
Basic Info
- Host: GitHub
- Owner: bernatgel
- Language: R
- Default Branch: master
- Size: 11.7 KB
Statistics
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
FindFocals - An R package to detect focal gains and deletions in SNP array data
Description
FindFocals is a simple package to detect small focal gains and deletions in SNP array data. It uses a naive approach to find clusters of SNPs above or below the expected range.
Notes:
- The package is still in early development and may or may no work as expected.
- This package has been developed for a specific need in our lab. It might not be developed further or maintained in any way.
Install
The easiest way to install the package is using devtools
library(devtools)
install_github("bernatgel/FindFocals")
How to use it
Load the data with loadSNPData and then process the results with findFocals.
The resulting object will contain the raw data and the focal gains and
deletions. Two additional functions are available to plot the raw data
(plotSNPData) and the complete results (plotFocals).
Owner
- Name: Bernat Gel
- Login: bernatgel
- Kind: user
- Location: Barcelona, Spain
- Company: Germans Trias Research Institute (IGTP)
- Twitter: bernatgel
- Repositories: 4
- Profile: https://github.com/bernatgel
Bioinformatician at IGTP. Interested in cancer genomics, data analysis and visualization. Working on NF1, Hereditary Cancer and genetic diagnostics.
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