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Fragman
View on CRAN: Click
here
Download and install Fragman package within the R console
Install from CRAN:
install.packages("Fragman")
Install from Github:
library("remotes")
install_github("cran/Fragman")
Install by package version:
library("remotes")
install_version("Fragman", "1.0.9")
Attach the package and use:
library("Fragman")
Maintained by
Giovanny Covarrubias-Pazaran
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2015-09-18
Latest Update: 2018-01-14
Description:
Performs fragment analysis using genetic data coming from capillary electrophoresis machines. These are files with FSA extension which stands for FASTA-type file, and .txt files from Beckman CEQ 8000 system, both contain DNA fragment intensities read by machinery. In addition to visualization, it performs automatic scoring of SSRs (Sample Sequence Repeats; a type of genetic marker very common across the genome) and other type of PCR markers (standing for Polymerase Chain Reaction) in biparental populations such as F1, F2, BC (backcross), and diversity panels (collection of genetic diversity).
How to cite:
Giovanny Covarrubias-Pazaran (2015). Fragman: Fragment Analysis in R. R package version 1.0.9, https://cran.r-project.org/web/packages/Fragman. Accessed 08 Mar. 2025.
Previous versions and publish date:
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Other R packages that Fragman depends,
imports, suggests or enhances
Complete documentation for Fragman
Functions, R codes and Examples using
the Fragman R package
Some associated functions: Fragman-package . arrange.jm . best.layout . big.peaks.col . detect.ladder . find.ladder . get.scores . homo.panel . homogenize.to.parentals . jm.conv . ladder.corrector . ladder.info.attach . lapply_pb . letter.to.jm . my.plants . num.to.lett . overview . overview2 . plot . pullup . read.abif . reals . saturate . score.markers . separate . storing.inds . threshs . transfft . transp .
Some associated R codes: Fragma-internal.R . arrange.jm.R . best.layout.R . big.peaks.col.R . detect.ladder.R . find.ladder.R . get.scores.R . homo.panel.R . homogenize.to.parentals.R . jm.conv.R . ladder.corrector.R . ladder.info.attach.R . lapply_pb.R . letter.to.jm.R . num.to.lett.R . overview.R . overview2.R . pullup.R . read.abif.R . reals.R . saturate.R . score.markers.R . separate.R . storing.inds.R . threshs.R . transfft.R . transp.R . Full Fragman package functions and examples
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