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TRAMPR (version 1.0-8)

'TRFLP' Analysis and Matching Package for R

Description

Matching terminal restriction fragment length polymorphism ('TRFLP') profiles between unknown samples and a database of known samples. TRAMPR facilitates analysis of many unknown profiles at once, and provides tools for working directly with electrophoresis output through to generating summaries suitable for community analyses with R's rich set of statistical functions. TRAMPR also resolves the issues of multiple 'TRFLP' profiles within a species, and shared 'TRFLP' profiles across species.

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Version

Install

install.packages('TRAMPR')

Monthly Downloads

540

Version

1.0-8

License

GPL-2

Maintainer

Rich FitzJohn

Last Published

June 9th, 2016

Functions in TRAMPR (1.0-8)

classify

Value Matching for Data Frames
demo.knowns

Demonstration Knowns Database
combine

Combine Two Objects
create.diffsmatrix

Calculate Matrix of Distances between Peaks
add.known

Add Knowns To TRAMPknowns Databases
TRAMP

TRFLP Analysis and Matching Program
remove.TRAMP.match

Mark a TRAMP Match as Ignored
plot.TRAMPsamples

Plot a TRAMPsamples Object
update.TRAMP

Interactively Alter a TRAMP Object
TRAMPR-package

The TRAMPR Package (TRFLP Analysis and Matching Package for R)
read.write

Read/Write TRAMPknowns and TRAMPsamples Objects
rebuild.TRAMP

Rebuild a TRAMP Object
summary.TRAMP

Create Presence/Absence Matrices from TRAMP Objects
plot.TRAMPknowns

Summary Plot of Knowns Data
load.abi

Load ABI Output Files
TRAMPsamples

TRAMPsamples Objects
TRAMPindexing

Index (Subset) TRAMPsamples and TRAMPknowns Objects
TRAMPknowns

TRAMPknowns Objects
absolute.min

Absolute Minimum
demo.samples

Demonstration Samples Database
combine.TRAMPsamples

Combine TRAMPsamples Objects
group.knowns

Knowns Clustering
build.knowns

Automatically Build Knowns Database
read.abi

Read ABI Output Files
plot.TRAMP

Plot a TRAMP Object