# Shiny App. Idiograms with Marks and Karyotype Indices

## Documentation for package ‘idiogramFISH’ version 2.0.13

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

allChrSizeSample | Chr. basic data Monocen.
allMarksSample | Mark Positional data - monocentrics
armRatioCI | FUNCTIONS armRatioCI and swapChrRegionDfSizeAndMarks.
asymmetry | FUNCTIONS asymmetry and asymmetryA2.
asymmetryA2 | FUNCTIONS asymmetry and asymmetryA2.
bigdfChrSizeHolo | Chr. basic data Holo.
bigdfMarkPosHolo | Mark Positional data - Holocen.
bigdfMarkPosHolo2 | Mark Positional data - Holocen.
bigdfOfChrSize | Chr. basic data Monocen.
bigdfOfChrSize3Mb | Chr. basic data Holo.
bigdfOfMarks | Mark Positional data - monocentrics
bigdfOfMarks3Mb | Mark Positional data - Holocen.
chrbasicdataHolo | Chr. basic data Holo.
chrbasicdatamono | Chr. basic data Monocen.
citrusMarkPos | FUNCTIONS: citrusSize, citrusMarkPos, markOverCMA
citrusSize | FUNCTIONS: citrusSize, citrusMarkPos, markOverCMA
dfAlloParentMarks | Mark Positional data - monocentrics
dfAlloParentMarksHolo | Mark Positional data - Holocen.
dfChrSizeHolo | Chr. basic data Holo.
dfMarkColor | Mark characteristics
dfMarkColor5S25S | Mark characteristics
dfMarkColorIn | Mark characteristics
dfMarkPosHolo | Mark Positional data - Holocen.
dfMarkStyle | Mark characteristics
dfOfChrSize | Chr. basic data Monocen.
dfOfMarks | Mark Positional data - monocentrics
dfOfMarks2 | Mark Positional data - monocentrics
fillMarkInfo | FUNCTION posCalc and fillMarkInfo
fillMarkInfo2 | FUNCTION posCalc and fillMarkInfo
genBankReadIF | FUNCTION genBankReadIF
humChr | Chr. basic data Monocen.
humMarkColor | Mark characteristics
humMarkPos | Mark Positional data - monocentrics
make.uniqueIF | FUNCTION make.uniqueIF
makedfMarkColorMycolors | FUNCTION to make a data.frame of Marks' characterisitcs
mapGGChr | FUNCTIONS mapGGChr and mapGGChrMark (for ggplot)
mapGGChrMark | FUNCTIONS mapGGChr and mapGGChrMark (for ggplot)
markdataholo | Mark Positional data - Holocen.
markOverCMA | FUNCTIONS: citrusSize, citrusMarkPos, markOverCMA
markposDFs | Mark Positional data - monocentrics
mydfMaColor | Mark characteristics
namesToColumns | FUNCTION that modifies marks' names into columns
parentalAndHybChrSize | Chr. basic data Monocen.
parentalAndHybHoloChrSize | Chr. basic data Holo.
perMark | FUNCTION perMark
plotIdiograms | Plot idiograms of karyotypes/genomes with and without centromere
posCalc | FUNCTION posCalc and fillMarkInfo
robert | FUNCTION to produce a Robertsonian translocation
runBoard | FUNCTION runBoard
swapChrRegionDfSizeAndMarks | FUNCTIONS armRatioCI and swapChrRegionDfSizeAndMarks.
traspadf | Chr. basic data Monocen.
traspaMarks | Mark Positional data - monocentrics