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RFLPtools (version 2.0)
Tools to Analyse RFLP Data
Description
Provides functions to analyse DNA fragment samples (i.e. derived from RFLP-analysis) and standalone BLAST report files (i.e. DNA sequence analysis).
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2.0
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Install
install.packages('RFLPtools')
Monthly Downloads
243
Version
2.0
License
LGPL-3
Maintainer
Matthias Kohl
Last Published
February 8th, 2022
Functions in RFLPtools (2.0)
Search functions
RFLPdata
Example data set for RFLP data
FragMatch
Compute matches for RFLP data via FragMatch.
RFLPlod
Remove bands below LOD
RFLPdist2
Compute distances for RFLP data.
RFLPplot
Function to plot RFLP data.
RFLPdist2ref
Compute distance between RFLP data and RFLP reference data.
RFLPdist
Compute distances for RFLP data.
RFLPtools-package
Tools To Analyse RFLP-Data
BLASTdata
Example data set for BLAST data
RFLPcombine
Combine RFLP data sets
read.blast
Read BLAST data
simMatrix
Similarity matrix for BLAST data.
simulateRFLPdata
Simulate RFLP data.
read.rflp
Read RFLP data
refDataGerm
Example data set from GERM software
sim2dist
Convert similarity matrix to dist object.
germ
Compute matches for RFLP data via GERM.
linCombDist
Linear Combination of Distances
nrBands
Function to compute number of bands.
newDataGerm
Example data set from GERM software
write.hclust
Cut a hierarchical cluster tree and write cluster identifiers to a text file.
RFLPrefplot
Function for a visual comparison of RFLP samples with reference samples.
diffDist
Distance Matrix Computation
RFLPref
Example data set for RFLP reference
RFLPqc
Quality control for RFLP data