Learn R Programming
⚠️There's a newer version (2.0) of this package.Take me there.

RFLPtools (version 1.6)

Tools to analyse RFLP data

Description

RFLPtools provides functions to analyse DNA fragment samples (i.e. derived from RFLP-analysis) and standalone BLAST report files (i.e. DNA sequence analysis).

Copy Link

Version

Install

install.packages('RFLPtools')

Monthly Downloads

186

Version

1.6

License

LGPL-3

Maintainer

Matthias Kohl

Last Published

August 14th, 2014

Functions in RFLPtools (1.6)

read.rflp

Read RFLP data
RFLPplot

Function to plot RFLP data.
RFLPcombine

Combine RFLP data sets
FragMatch

Compute matches for RFLP data via FragMatch.
BLASTdata

Example data set for BLAST data
RFLPdist2ref

Compute distance between RFLP data and RFLP reference data.
RFLPtools-package

Tools to analyse RFLP-data
nrBands

Function to compute number of bands.
RFLPrefplot

Function for a visual comparison of RFLP samples with reference samples.
linCombDist

Linear Combination of Distances
sim2dist

Convert similarity matrix to dist object.
simMatrix

Similarity matrix for BLAST data.
RFLPdist2

Compute distances for RFLP data.
RFLPdata

Example data set for RFLP data
germ

Compute matches for RFLP data via GERM.
RFLPref

Example data set for RFLP reference
refDataGerm

Example data set from GERM software
read.blast

Read BLAST data
RFLPdist

Compute distances for RFLP data.
RFLPqc

Quality control for RFLP data
simulateRFLPdata

Simulate RFLP data.
RFLPlod

Remove bands below LOD
newDataGerm

Example data set from GERM software
write.hclust

Cut a hierarchical cluster tree and write cluster identifiers to a text file.
diffDist

Distance Matrix Computation