Files in sangeranalyseR
sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R

.travis.yml

readme.md

NEWS

NAMESPACE

DESCRIPTION

LICENSE

build/vignette.rds

data/sangerReadFData.RData

data/sangerAlignmentData.RData

data/sangerContigData.RData

data/qualityReportData.RData

R/sangeranalyseR_package.R R/ClassSangerAlignment.R R/MethodsQualityReport.R R/ClassChromatogramParam.R R/AllGenerics.R R/MethodSangerAlignment.R R/UtilitiesFunc.R R/ShinySangerAlignmentUI.R R/ShinyServerModule.R R/ClassSangerContig.R R/ClassSangerRead.R R/ShinySangerContigUI.R R/ShinySangerAlignmentServer.R R/Constructors.R R/UtilitiesFuncInputChecker.R R/ClassQualityReport.R R/LoadMessage.R R/MethodShared.R R/MethodSangerContig.R R/sangeranalyseR_show_method.R R/MethodSangerRead.R R/data.R R/ShinySangerContigServer.R

docs/wallpaperflare.com_wallpaper (1).jpg

docs/README.md

docs/Makefile

docs/make.bat

docs/build/html/index.html

docs/build/html/objects.inv

docs/build/html/search.html

docs/build/html/genindex.html

docs/build/html/.buildinfo

docs/build/html/searchindex.js

docs/build/html/_images/SangerContig_shiny_indelsDF_stopcodonsDF.png

docs/build/html/_images/SangerAlignment_ShinyApp_8.png

docs/build/html/_images/sangeranalyseR_filename_convention.png

docs/build/html/_images/SangerContig_file_structure.png

docs/build/html/_images/SangerContig_shiny_dendrogram.png

docs/build/html/_images/SangerContig_shiny_trimmed_before_after.png

docs/build/html/_images/SangerAlignment_ShinyApp_7.png

docs/build/html/_images/SangerContig_shiny_trimming_2.png

docs/build/html/_images/SangerContig_plotting_popup.png

docs/build/html/_images/SangerAlignment_ShinyApp_6.png

docs/build/html/_images/SangerAlignment_fasta_input.png

docs/build/html/_images/SangerAlignment_ShinyApp_3.png

docs/build/html/_images/SangerContig_shiny_save_popup.png

docs/build/html/_images/sangeranalyseR_filename_convention_fasta.png

docs/build/html/_images/SangerContig_shiny_chromatogram_panel.png

docs/build/html/_images/SangerAlignment_ShinyApp_17.png

docs/build/html/_images/SangerContig_shiny_SangerRead_page.png

docs/build/html/_images/SangerAlignment_ShinyApp_5.png

docs/build/html/_images/SangerContig_read_names_conversion.png

docs/build/html/_images/SangerRead_hierarchy.png

docs/build/html/_images/SangerContig_shiny_SangerContig_page.png

docs/build/html/_images/SangerAlignment_ShinyApp_11.png

docs/build/html/_images/SangerContig_fasta_input.png

docs/build/html/_images/SangerRead_file_structure.png

docs/build/html/_images/SangerAlignment_alignment_result.png

docs/build/html/_images/SangerContig_hierarchy.png

docs/build/html/_images/SangerAlignment_ShinyApp_15.png

docs/build/html/_images/SangerAlignment_ShinyApp_13.png

docs/build/html/_images/SangerAlignment_shiny_app.png

docs/build/html/_images/SangerAlignment_ShinyApp_14.png

docs/build/html/_images/SangerAlignment_ShinyApp_10.png

docs/build/html/_images/SangerContig_shiny_trimmed_sequences.png

docs/build/html/_images/SangerContig_shiny_alignment_differenceDF.png

docs/build/html/_images/SangerAlignment_file_structure_complex.png

docs/build/html/_images/SangerRead_qualityBasePlot.png

docs/build/html/_images/SangerAlignment_ShinyApp_9.png

docs/build/html/_images/SangerContig_shiny_samples_distance.png

docs/build/html/_images/SangerContig_shiny_trimming_1.png

docs/build/html/_images/bioconductor.png

docs/build/html/_images/SangerRead_fasta_input_file.png

docs/build/html/_images/SangerContig_shiny_bp_quality_plot.png

docs/build/html/_images/SangerContig_shiny_chromatogram.png

docs/build/html/_images/SangerAlignment_file_structure_beginner.png

docs/build/html/_images/SangerAlignment_ShinyApp_16.png

docs/build/html/_images/SangerAlignment_read_names_conversion.png

docs/build/html/_images/SangerAlignment_hierachy.png

docs/build/html/_images/SangerAlignment_ShinyApp_18.png

docs/build/html/_images/SangerAlignment_ShinyApp_1.png

docs/build/html/_images/SangerAlignment_tree.png

docs/build/html/_images/SangerAlignment_ShinyApp_2.png

docs/build/html/content/how_to_page.html

docs/build/html/content/advance_user_SangerRead_fasta.html

docs/build/html/content/conclusion.html

docs/build/html/content/quickstart.html

docs/build/html/content/advance_user_SangerAlignment_fasta.html

docs/build/html/content/advance_user_SangerContig_ab1.html

docs/build/html/content/contact.html

docs/build/html/content/advance_user_SangerAlignment_ab1.html

docs/build/html/content/advance_user_SangerRead_ab1.html

docs/build/html/content/help.html

docs/build/html/content/frequent_questions.html

docs/build/html/content/function_manual.html

docs/build/html/content/installation.html

docs/build/html/content/license.html

docs/build/html/content/advance_user_SangerContig_fasta.html

docs/build/html/content/beginner.html

docs/build/html/_sources/index.rst.txt

docs/build/html/_sources/content/beginner.rst.txt

docs/build/html/_sources/content/license.rst.txt

docs/build/html/_sources/content/advance_user_SangerContig_fasta.rst.txt

docs/build/html/_sources/content/frequent_questions.rst.txt

docs/build/html/_sources/content/installation.rst.txt

docs/build/html/_sources/content/conclusion.rst.txt

docs/build/html/_sources/content/advance_user_SangerRead_fasta.rst.txt

docs/build/html/_sources/content/function_manual.rst.txt

docs/build/html/_sources/content/advance_user_SangerRead_ab1.rst.txt

docs/build/html/_sources/content/contact.rst.txt

docs/build/html/_sources/content/how_to_page.rst.txt

docs/build/html/_sources/content/advance_user_SangerAlignment_ab1.rst.txt

docs/build/html/_sources/content/advance_user_SangerContig_ab1.rst.txt

docs/build/html/_sources/content/quickstart.rst.txt

docs/build/html/_sources/content/advance_user_SangerAlignment_fasta.rst.txt

docs/build/html/_sources/content/help.rst.txt

docs/build/html/_static/pygments.css

docs/build/html/_static/searchtools.js

docs/build/html/_static/underscore-1.3.1.js

docs/build/html/_static/jquery-3.4.1.js

docs/build/html/_static/minus.png

docs/build/html/_static/jquery.js

docs/build/html/_static/language_data.js

docs/build/html/_static/underscore.js

docs/build/html/_static/documentation_options.js

docs/build/html/_static/doctools.js

docs/build/html/_static/file.png

docs/build/html/_static/plus.png

docs/build/html/_static/basic.css

docs/build/html/_static/js/modernizr.min.js

docs/build/html/_static/js/theme.js

docs/build/html/_static/fonts/fontawesome-webfont.svg

docs/build/html/_static/fonts/Inconsolata-Bold.ttf

docs/build/html/_static/fonts/fontawesome-webfont.woff2

docs/build/html/_static/fonts/fontawesome-webfont.woff

docs/build/html/_static/fonts/fontawesome-webfont.eot

docs/build/html/_static/fonts/Inconsolata-Regular.ttf

docs/build/html/_static/fonts/RobotoSlab-Regular.ttf

docs/build/html/_static/fonts/Lato-Bold.ttf

docs/build/html/_static/fonts/fontawesome-webfont.ttf

docs/build/html/_static/fonts/Inconsolata.ttf

docs/build/html/_static/fonts/Lato-Regular.ttf

docs/build/html/_static/fonts/RobotoSlab-Bold.ttf

docs/build/html/_static/fonts/RobotoSlab/roboto-slab-v7-regular.woff2

docs/build/html/_static/fonts/RobotoSlab/roboto-slab-v7-bold.eot

docs/build/html/_static/fonts/RobotoSlab/roboto-slab-v7-regular.ttf

docs/build/html/_static/fonts/RobotoSlab/roboto-slab-v7-regular.eot

docs/build/html/_static/fonts/RobotoSlab/roboto-slab-v7-bold.woff

docs/build/html/_static/fonts/RobotoSlab/roboto-slab-v7-regular.woff

docs/build/html/_static/fonts/RobotoSlab/roboto-slab-v7-bold.woff2

docs/build/html/_static/fonts/RobotoSlab/roboto-slab-v7-bold.ttf

docs/build/html/_static/fonts/Lato/lato-italic.ttf

docs/build/html/_static/fonts/Lato/lato-regular.woff2

docs/build/html/_static/fonts/Lato/lato-italic.woff2

docs/build/html/_static/fonts/Lato/lato-bolditalic.ttf

docs/build/html/_static/fonts/Lato/lato-regular.woff

docs/build/html/_static/fonts/Lato/lato-italic.eot

docs/build/html/_static/fonts/Lato/lato-bold.woff

docs/build/html/_static/fonts/Lato/lato-bold.woff2

docs/build/html/_static/fonts/Lato/lato-bold.eot

docs/build/html/_static/fonts/Lato/lato-bolditalic.woff2

docs/build/html/_static/fonts/Lato/lato-bold.ttf

docs/build/html/_static/fonts/Lato/lato-bolditalic.woff

docs/build/html/_static/fonts/Lato/lato-regular.eot

docs/build/html/_static/fonts/Lato/lato-regular.ttf

docs/build/html/_static/fonts/Lato/lato-italic.woff

docs/build/html/_static/fonts/Lato/lato-bolditalic.eot

docs/build/html/_static/css/theme.css

docs/build/html/_static/css/badge_only.css

docs/build/doctrees/environment.pickle

docs/build/doctrees/index.doctree

docs/build/doctrees/content/advance_user_SangerRead_ab1.doctree

docs/build/doctrees/content/frequent_questions.doctree

docs/build/doctrees/content/advance_user_SangerContig_fasta.doctree

docs/build/doctrees/content/function_manual.doctree

docs/build/doctrees/content/license.doctree

docs/build/doctrees/content/advance_user_SangerAlignment_fasta.doctree

docs/build/doctrees/content/installation.doctree

docs/build/doctrees/content/advance_user_SangerContig_ab1.doctree

docs/build/doctrees/content/advance_user_SangerAlignment_ab1.doctree

docs/build/doctrees/content/help.doctree

docs/build/doctrees/content/quickstart.doctree

docs/build/doctrees/content/how_to_page.doctree

docs/build/doctrees/content/conclusion.doctree

docs/build/doctrees/content/advance_user_SangerRead_fasta.doctree

docs/build/doctrees/content/contact.doctree

docs/build/doctrees/content/beginner.doctree

docs/source/conf.py

docs/source/index.rst

docs/source/image/SangerContig.pdf

docs/source/image/SangerContig_shiny_indelsDF_stopcodonsDF.png

docs/source/image/SangerAlignment_ShinyApp_8.png

docs/source/image/sangeranalyseR_filename_convention.png

docs/source/image/SangerContig_file_structure.png

docs/source/image/SangerContig_shiny_dendrogram.png

docs/source/image/SangerContig_shiny_trimmed_before_after.png

docs/source/image/SangerAlignment_ShinyApp_7.png

docs/source/image/SangerContig_shiny_trimming_2.png

docs/source/image/SangerContig_plotting_popup.png

docs/source/image/SangerAlignment_ShinyApp_6.png

docs/source/image/SangerAlignment_fasta_input.png

docs/source/image/SangerAlignment_ShinyApp_3.png

docs/source/image/SangerContig_shiny_save_popup.png

docs/source/image/sangeranalyseR_filename_convention_fasta.png

docs/source/image/SangerAlignment_ShinyApp_4.png

docs/source/image/SangerContig_shiny_chromatogram_panel.png

docs/source/image/SangerAlignment_ShinyApp_17.png

docs/source/image/SangerContig_shiny_SangerRead_page.png

docs/source/image/SangerAlignment_ShinyApp_5.png

docs/source/image/SangerContig_read_names_conversion.png

docs/source/image/SangerRead_hierarchy.png

docs/source/image/SangerContig_shiny_SangerContig_page.png

docs/source/image/SangerAlignment_ShinyApp_11.png

docs/source/image/SangerContig_fasta_input.png

docs/source/image/SangerRead_file_structure.png

docs/source/image/SangerAlignment_alignment_result.png

docs/source/image/SangerContig_hierarchy.png

docs/source/image/SangerAlignment_ShinyApp_15.png

docs/source/image/SangerAlignment_ShinyApp_13.png

docs/source/image/SangerAlignment_shiny_app.png

docs/source/image/SangerAlignment_ShinyApp_14.png

docs/source/image/SangerAlignment_ShinyApp_10.png

docs/source/image/SangerContig_shiny_trimmed_sequences.png

docs/source/image/SangerContig_shiny_alignment_differenceDF.png

docs/source/image/SangerAlignment_file_structure.png

docs/source/image/SangerAlignment_file_structure_complex.png

docs/source/image/SangerRead_qualityBasePlot.png

docs/source/image/SangerAlignment_ShinyApp_9.png

docs/source/image/SangerContig_shiny_samples_distance.png

docs/source/image/SangerContig_shiny_trimming_1.png

docs/source/image/bioconductor.png

docs/source/image/SangerRead_fasta_input_file.png

docs/source/image/SangerContig_shiny_bp_quality_plot.png

docs/source/image/SangerContig_shiny_chromatogram.png

docs/source/image/SangerAlignment_file_structure_beginner.png

docs/source/image/SangerContig_shiny_contig_parameters_reference.png

docs/source/image/SangerAlignment_ShinyApp_16.png

docs/source/image/SangerRead.pdf

docs/source/image/SangerAlignment_read_names_conversion.png

docs/source/image/SangerAlignment_hierachy.png

docs/source/image/SangerAlignment.pdf

docs/source/image/SangerAlignment_ShinyApp_18.png

docs/source/image/SangerAlignment_ShinyApp_1.png

docs/source/image/SangerAlignment_tree.png

docs/source/image/SangerAlignment_ShinyApp_2.png

docs/source/content/advance_user_SangerContig_ab1.rst

docs/source/content/beginner.rst

docs/source/content/advance_user_SangerAlignment_ab1.rst

docs/source/content/contact.rst

docs/source/content/quickstart.rst

docs/source/content/conclusion.rst

docs/source/content/advance_user_SangerRead_ab1.rst

docs/source/content/how_to_page.rst

docs/source/content/advance_user_SangerContig_fasta.rst

docs/source/content/license.rst

docs/source/content/advance_user_SangerRead_fasta.rst

docs/source/content/function_manual.rst

docs/source/content/help.rst

docs/source/content/frequent_questions.rst

docs/source/content/advance_user_SangerAlignment_fasta.rst

docs/source/content/installation.rst

vignettes/sangeranalyseR

inst/CITATION

inst/doc/sangeranalyseR.R

inst/doc/sangeranalyseR.html

inst/doc/sangeranalyseR.Rmd inst/extdata/README.md

inst/extdata/fasta/SangerAlignment/names_conversion.csv

inst/extdata/fasta/SangerAlignment/Sanger_all_reads.fa

inst/extdata/fasta/SangerContig/Achl_RBNII384-13.fa

inst/extdata/fasta/SangerContig/names_conversion_2.csv

inst/extdata/fasta/SangerContig/Achl_ACHLO006-09.fa

inst/extdata/fasta/SangerContig/names_conversion_1.csv

inst/extdata/fasta/SangerRead/Achl_ACHLO006-09_1_F.fa

inst/extdata/fasta/SangerRead/Achl_ACHLO006-09_2_R.fa

inst/extdata/ab1/SangerAlignment/names_conversion.csv

inst/extdata/ab1/SangerContig/names_conversion_2.csv

inst/extdata/ab1/SangerContig/names_conversion_1.csv

inst/extdata/Drosophila_melanogaster/Dmel_PHDIP946-11_2_R.ab1

inst/extdata/Drosophila_melanogaster/TRACE_FILE_INFO.txt

inst/extdata/Drosophila_melanogaster/Dmel_TDWGB669-10_2_R.ab1

inst/extdata/Drosophila_melanogaster/Dmel_TDWGB557-10_1_F.ab1

inst/extdata/Drosophila_melanogaster/Dmel_BBDEE689-10_2_R.ab1

inst/extdata/Drosophila_melanogaster/Dmel_TDWGB669-10_1_F.ab1

inst/extdata/Drosophila_melanogaster/Dmel_BBDEE689-10_1_F.ab1

inst/extdata/Drosophila_melanogaster/Dmel_TDWGB557-10_2_R.ab1

inst/extdata/Drosophila_melanogaster/Dmel_BBDCN941-10_2_R.ab1

inst/extdata/Drosophila_melanogaster/Dmel_BBDCN941-10_1_F.ab1

inst/extdata/Drosophila_melanogaster/Dmel_PHDIP946-11_1_F.ab1

inst/extdata/Allolobophora_chlorotica/RBNII/Achl_RBNII384-13_1_F.ab1

inst/extdata/Allolobophora_chlorotica/RBNII/Achl_RBNII397-13_2_R.ab1

inst/extdata/Allolobophora_chlorotica/RBNII/Achl_RBNII397-13_1_F.ab1

inst/extdata/Allolobophora_chlorotica/RBNII/Achl_RBNII384-13_2_R.ab1

inst/extdata/Allolobophora_chlorotica/RBNII/Achl_RBNII395-13_1_F.ab1

inst/extdata/Allolobophora_chlorotica/RBNII/Achl_RBNII395-13_2_R.ab1

inst/extdata/Allolobophora_chlorotica/RBNII/Achl_RBNII396-13_2_R.ab1

inst/extdata/Allolobophora_chlorotica/RBNII/Achl_RBNII396-13_1_F.ab1

inst/extdata/Allolobophora_chlorotica/ACHLO/Achl_ACHLO007-09_1_F.ab1

inst/extdata/Allolobophora_chlorotica/ACHLO/Achl_ACHLO006-09_2_R.ab1

inst/extdata/Allolobophora_chlorotica/ACHLO/Achl_ACHLO007-09_2_R.ab1

inst/extdata/Allolobophora_chlorotica/ACHLO/Achl_ACHLO040-09_2_R.ab1

inst/extdata/Allolobophora_chlorotica/ACHLO/Achl_ACHLO006-09_1_F.ab1

inst/extdata/Allolobophora_chlorotica/ACHLO/Achl_ACHLO040-09_1_F.ab1

inst/extdata/Allolobophora_chlorotica/ACHLO/Achl_ACHLO041-09_1_F.ab1

inst/extdata/Allolobophora_chlorotica/ACHLO/Achl_ACHLO041-09_2_R.ab1

inst/rmd/SangerRead_Report_ab1.Rmd inst/rmd/SangerContig_Report.Rmd inst/rmd/SangerAlignment_Report.Rmd inst/rmd/SangerRead_Report_fasta.Rmd

sangeranalyseR documentation built on Nov. 8, 2020, 5:59 p.m.

rdrr.io home R language documentation Run R code online

CRAN packages Bioconductor packages R-Forge packages GitHub packages

Note that we can't provide technical support on individual packages. You should contact the package authors for that.

sangeranalyseR
sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R

Files in sangeranalyseR
sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R

R Package Documentation

Browse R Packages

We want your feedback!

sangeranalyseR sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R

Files in sangeranalyseR sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R

R Package Documentation

Browse R Packages

We want your feedback!

sangeranalyseR
sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R

Files in sangeranalyseR
sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R