Other packages > Find by keyword >

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:
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 17 Jul. 2026.
Previous versions and publish date:
1.1.3 (2020-12-02 11:30), 2.1.3 (2024-07-26 17:00), 2.1.6 (2024-08-25 09:50), (2026-07-09 08:10)
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
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

FastKNN  
Fast k-Nearest Neighbors
Compute labels for a test set according to the k-Nearest Neighbors classification. This is a fast wa ...
Download / Learn more Package Citations See dependency  
r2resize  
In-Text Resize for Images, Tables and Fancy Resize Containers in 'shiny', 'rmarkdown' and 'quarto' Documents
Automatic resizing toolbar for containers, images and tables. Various resizable or expandable contai ...
Download / Learn more Package Citations See dependency  
VEwaningVariant  
Vaccine Efficacy Over Time - Variant Aware
Implements methods for inference on potential waning of vaccine efficacy and for estimation of vacci ...
Download / Learn more Package Citations See dependency  
rt.test  
Robustified t-Test
Performs one-sample t-test based on robustified statistics using median/MAD (TA) and Hodges-Lehmann/ ...
Download / Learn more Package Citations See dependency  
alabama  
Constrained Nonlinear Optimization
Augmented Lagrangian Adaptive Barrier Minimization Algorithm for optimizing smooth nonlinear object ...
Download / Learn more Package Citations See dependency  
VFS  
Vegetated Filter Strip and Erosion Model
Empirical models for runoff, erosion, and phosphorus loss across a vegetated filter strip, given sl ...
Download / Learn more Package Citations See dependency  

27,806

R Packages

239,283

Dependencies

73,837

Author Associations

27,807

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA