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idiogramFISH  

Shiny App. Idiograms with Marks and Karyotype Indices
View on CRAN: Click here


Download and install idiogramFISH package within the R console
Install from CRAN:
install.packages("idiogramFISH")

Install from Github:
library("remotes")
install_github("cran/idiogramFISH")

Install by package version:
library("remotes")
install_version("idiogramFISH", "2.0.13")



Attach the package and use:
library("idiogramFISH")
Maintained by
Fernando Roa
[Scholar Profile | Author Map]
First Published: 2019-08-24
Latest Update: 2023-08-22
Description:
Plot idiograms of karyotypes, plasmids, circular chr. having a set of data.frames for chromosome data and optionally mark data. Two styles of chromosomes can be used: without or with visible chromatids. Supports micrometers, cM and Mb or any unit. Three styles of centromeres are available: triangle, rounded and inProtein; and six styles of marks are available: square (squareLeft), dots, cM (cMLeft), cenStyle, upArrow (downArrow), exProtein (inProtein); its legend (label) can be drawn inline or to the right of karyotypes. Idiograms can also be plotted in concentric circles. It is possible to calculate chromosome indices by Levan et al. (1964) , karyotype indices of Watanabe et al. (1999) and Romero-Zarco (1986) and classify chromosomes by morphology Guerra (1986) and Levan et al. (1964).
How to cite:
Fernando Roa (2019). idiogramFISH: Shiny App. Idiograms with Marks and Karyotype Indices. R package version 2.0.13, https://cran.r-project.org/web/packages/idiogramFISH. Accessed 06 May. 2025.
Previous versions and publish date:
1.0.0 (2019-08-24 12:20), 1.2.1 (2019-09-17 06:30), 1.5.1 (2019-09-27 17:10), 1.6.1 (2019-10-04 20:40), 1.6.3 (2019-10-13 22:00), 1.7.1 (2019-10-20 19:50), 1.8.1 (2019-10-29 23:20), 1.8.3 (2019-11-14 10:00), 1.9.1 (2019-11-29 10:10), 1.11.1 (2019-12-12 17:30), 1.12.1 (2020-01-10 17:00), 1.14.2 (2020-02-27 16:10), 1.14.7 (2020-03-28 09:20), 1.14.11 (2020-05-01 01:30), 1.15.1 (2020-06-03 07:20), 1.15.3 (2020-07-02 06:40), 1.16.1 (2020-07-30 10:20), 1.16.6 (2020-09-17 15:10), 1.16.7 (2020-10-15 23:30), 1.16.8 (2020-12-01 01:40), 2.0.0 (2021-02-06 08:20), 2.0.2 (2021-03-04 09:00), 2.0.3 (2021-04-13 13:30), 2.0.4 (2021-04-25 00:40), 2.0.5 (2021-05-21 11:20), 2.0.6 (2021-09-30 14:00), 2.0.8 (2022-01-11 00:42), 2.0.9 (2022-09-16 16:46), 2.0.10 (2023-04-05 21:03), 2.0.11 (2023-04-11 08:20), 2.0.12 (2023-06-08 01:10)
Other packages that cited idiogramFISH R package
View idiogramFISH citation profile
Other R packages that idiogramFISH depends, imports, suggests or enhances
Complete documentation for idiogramFISH
Functions, R codes and Examples using the idiogramFISH R package
Some associated functions: addAttributesDfChrSize . addNotes . armRatioCI . arrowPlotMark . asymmetry . cMPlotMark . checkArmHolocenError . checkNameChrDfMarks . chrbasicdataHolo . chrbasicdatamono . citrusSize . customCeiling . dfMarkStyle . dfToListColumn . filterExtraOTU . fixChrNameDupDF . genBankReadIF . idiogramFISH-package . insertInList . make.uniqueIF . makeNumCols . makeVectorNames . makedfMarkColor . makedfMarkColorMycolors . mapGGChr . mapXY . mapXYCenMimic . markDistCenGISHfix . markdataholo . markposDFs . mimicCenPlotMark . namesToColumns . newOrderColumn . perMark . plotDotMarks . plotIdiograms . plotSqMarks . plotlabelsright . posCalc . removeNAFromList . robert . rulerPlot . rulerTitle . runBoard . textLabel . textLabelDots . yVertoHor . 
Some associated R codes: addAttributesDfChrSize.R . addNotes.R . armRatioCI.R . arrowPlotMark.R . asymmetry.R . cMPlotMark.R . checkArmHolocenError.R . checkNameChrDfMarks.R . chrbasicdataHolo.R . chrbasicdatamono.R . citrusSize.R . customCeiling.R . dfMarkStyle.R . dfToListColumn.R . filterExtraOTU.R . fixChrNameDupDF.R . genBankReadIF.R . idiogramFISH-package.R . idiogramFISH.R . insertInList.R . make.uniqueIF.R . makeNumCols.R . makeVectorNames.R . makedfMarkColor.R . makedfMarkColorMycolors.R . mapGGChr.R . mapXY.R . mapXYCenMimic.R . markDistCenGISHfix.R . markdataholo.R . markposDFs.R . mimicCenPlotMark.R . namesToColumns.R . newOrderColumn.R . onAttach.R . orientation.R . perMark.R . plotDotMarks.R . plotIdiograms.R . plotlabelsright.R . posCalc.R . removeNAFromList.R . robert.R . rulerPlot.R . rulerTitle.R . runBoard.R . sqPlotMarkCP.R . textLabel.R . textLabelDots.R .  Full idiogramFISH package functions and examples
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