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falconx  

Finding Allele-Specific Copy Number in Whole-Exome Sequencing Data
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Download and install falconx package within the R console
Install from CRAN:
install.packages("falconx")

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

Install by package version:
library("remotes")
install_version("falconx", "0.2")



Attach the package and use:
library("falconx")
Maintained by
Hao Chen
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2016-04-21
Latest Update: 2017-02-24
Description:
This is a method for Allele-specific DNA Copy Number profiling for whole-Exome sequencing data. Given the allele-specific coverage and site biases at the variant loci, this program segments the genome into regions of homogeneous allele-specific copy number. It requires, as input, the read counts for each variant allele in a pair of case and control samples, as well as the site biases. For detection of somatic mutations, the case and control samples can be the tumor and normal sample from the same individual. The implemented method is based on the paper: Chen, H., Jiang, Y., Maxwell, K., Nathanson, K. and Zhang, N. (under review). Allele-specific copy number estimation by whole Exome sequencing.
How to cite:
Hao Chen (2016). falconx: Finding Allele-Specific Copy Number in Whole-Exome Sequencing Data. R package version 0.2, https://cran.r-project.org/web/packages/falconx. Accessed 31 Jan. 2025.
Previous versions and publish date:
0.1 (2016-04-21 22:13)
Other packages that cited falconx R package
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Other R packages that falconx depends, imports, suggests or enhances
Complete documentation for falconx
Functions, R codes and Examples using the falconx R package
Some associated functions: biasMatrix . falconx . getASCN.x . getChangepoints.x . pos . readMatrix . tauhat . view . 
Some associated R codes: Full falconx package functions and examples
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