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genBaRcode
View on CRAN: Click
here
Download and install genBaRcode package within the R console
Install from CRAN:
install.packages("genBaRcode")
Install from Github:
library("remotes")
install_github("cran/genBaRcode")
Install by package version:
library("remotes")
install_version("genBaRcode", "1.2.7")
Attach the package and use:
library("genBaRcode")
Maintained by
Lars Thielecke
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2017-09-21
Latest Update: 2023-03-15
Description:
Provides the necessary functions to identify and extract a selection of already available barcode constructs (Cornils, K. et al. (2014) ) and freely choosable barcode designs from next generation sequence (NGS) data. Furthermore, it offers the possibility to account for sequence errors, the calculation of barcode similarities and provides a variety of visualisation tools (Thielecke, L. et al. (2017) ).
How to cite:
Lars Thielecke (2017). genBaRcode: Analysis and Visualization Tools for Genetic Barcode Data. R package version 1.2.7, https://cran.r-project.org/web/packages/genBaRcode. Accessed 21 Nov. 2024.
Previous versions and publish date:
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Complete documentation for genBaRcode
Functions, R codes and Examples using
the genBaRcode R package
Some associated functions: BC_dat . BC_dat_EC . BCdat-class . asBCdat . com_pair . createGDF . dot-createPatternFile . dot-generateColors . dot-getBarcodeFilter . dot-getDiagonalIndex . dot-getMinDist . dot-getWobblePos . dot-hex2rgbColor . dot-revComp . dot-revComp_EqLength . dot-revComp_UneqLength . dot-testDirIdentifier . errorCorrection . error_correction_circlePlot . error_correction_clustered_HDs . error_correction_treePlot . extractBarcodes . genBaRcode_app . generateKirchenplot . generateTimeSeriesData . getBackbone . getBackboneSelection . getLabel . getReads . getResultsDir . ggplotDistanceGraph . ggplotDistanceGraph_EC . hybridsIdentification . plotClusterGgTree . plotClusterTree . plotDistanceIgraph . plotDistanceVisNetwork . plotDistanceVisNetwork_EC . plotNucFrequency . plotQualityScoreDis . plotQualityScorePerCycle . plotReadFrequencies . plotSeqLogo . plotTimeSeries . plotVennDiagram . prepareDatObject . processingRawData . qualityFiltering . readBCdat . setBackbone . setLabel . setReads . setResultsDir .
Some associated R codes: BCdata-class-methods.R . BCdata-class.R . analysis_functions.R . data.R . error_correction_function.R . helper_functions.R . plot_functions.R . raw_data_processing.R . Full genBaRcode package functions and examples
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