TRAMPR v1.0-8
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'TRFLP' Analysis and Matching Package for R
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.
Functions in TRAMPR
| Name | Description | |
| 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 | |
| No Results! | ||
Vignettes of TRAMPR
| Name | ||
| TRAMPRdemo.Rnw | ||
| No Results! | ||
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Details
| Date | 2016-05-20 |
| License | GPL-2 |
| NeedsCompilation | no |
| Packaged | 2016-06-09 08:43:36 UTC; rich |
| Repository | CRAN |
| Date/Publication | 2016-06-09 13:17:58 |
| depends | R (>= 2.4) |
| Contributors | Rich FitzJohn, Ian Dickie |
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