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Multiplex Ligation-dependent Probe Amplification

R package implementing the prediction software for GCB/ABC classification by RT-MLPA (Mareschal et al, JMD 2015)

Availability

A short presentation of the project can be found on my personnal website.

Development sources are freely available on GitHub :

All this material is freely distributed under the GNU Public License 3, shipped with sources and builds.

Support

Bugs, suggestions and help requests should be submitted using GitHub's Issues (see 'Availability').

Changelog

Release updates are tracked by the NEWS.Rd file, browsable on the CRAN repository (see 'Availability').

Individual commits can be followed on GitHub (see 'Availability').

Credits

Sylvain Mareschal <maressyl@gmail.com>

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Version

Install

install.packages('MLPA')

Monthly Downloads

3

Version

1.10.0

License

GPL (>= 3)

Maintainer

Sylvain Mareschal

Last Published

May 1st, 2020

Functions in MLPA (1.10.0)

plot.fsa

Plot method for "fsa" objects
print.fsa

Print method for "fsa" objects
designFile

Process interface's design file
peaks.fsa

Get maximal value in ranges
classify

Apply the binary predictor to FSA peaks
model

Object constructor for binary predictors
plot.fsaModel

Plot method for "fsaModel" objects
fusions.process

LD-RTPCR fusion identification by Sanger
GEP.process

MLPA peak detection
read.sanger

Imports a .ab1 file from Applied Biosystems corresponding to Sanger sequencing
wav2RGB

Converts light wavelengths to RGB colors
align.fsa

Aligns peaks using size ladder
read.abif

Read ABIF formatted files
read.fsa

Imports a .fsa file from Applied Biosystems
train

Training function for binary predictors