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MicroSEC  

Sequence Error Filter for Formalin-Fixed and Paraffin-Embedded Samples
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("MicroSEC", "2.1.6")



Attach the package and use:
library("MicroSEC")
Maintained by
Masachika Ikegami
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2020-12-02
Latest Update: 2024-07-26
Description:
Clinical sequencing of tumor is usually performed on formalin-fixed and paraffin-embedded samples and have many sequencing errors. We found that the majority of these errors are detected in chimeric read caused by single-strand DNA with micro-homology. Our filtering pipeline focuses on the uneven distribution of the artifacts in each read and removes such errors in formalin-fixed and paraffin-embedded samples without over-eliminating the true mutations detected in fresh frozen samples.
How to cite:
Masachika Ikegami (2020). MicroSEC: Sequence Error Filter for Formalin-Fixed and Paraffin-Embedded Samples. R package version 2.1.6, https://cran.r-project.org/web/packages/MicroSEC. Accessed 22 Dec. 2024.
Previous versions and publish date:
1.1.3 (2020-12-02 11:30), 2.1.3 (2024-07-26 17:00)
Other packages that cited MicroSEC R package
View MicroSEC citation profile
Other R packages that MicroSEC depends, imports, suggests or enhances
Complete documentation for MicroSEC
Functions, R codes and Examples using the MicroSEC R package
Full MicroSEC package functions and examples
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