inveRsion: Inversions in genotype data

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Package to find genetic inversions in genotype (SNP array) data.

Author
Alejandro Caceres
Date of publication
None
Maintainer
Alejandro Caceres <acaceres@creal.cat>
License
GPL (>= 2)
Version
1.22.0

View on Bioconductor

Man pages

ac
Sample data set of class accuracy
accBic
accBic computes "accuracy" from "inversionList"
accuracy-class
Class "accuracy"
codeHaplo
Codes haplotypes into decimal integers
gDat
Sample data of class genoDat
GenoDat-class
Class "GenoDat"
GenoDatROI-class
Class "GenoDatROI"
getClassif-methods
Overall classification
getInv-methods
gets "scan" into a matrix
getROIs-methods
Extracts regions of possible inversion events from "scan"
hapCode
Sample data set of class HaploCode
HaploCode-class
Class "HaploCode"
inversion-class
Class "inversion"
inveRsion-internal
Internal inveRsion objects
inversionList-class
Class "inversionList"
inveRsion-package
Detection of Genetic inversions using SNP-array data
invList
Sample data of class inversionList
listInv-methods
Constructor of class inversionList
scan-class
Class "scan"
scanInv
Inversion scan
scanRes
Sample data set of class scan
setUpGenoDatFile
Loads genotype data onto R

Files in this package

inveRsion/DESCRIPTION
inveRsion/NAMESPACE
inveRsion/NEWS.txt
inveRsion/R
inveRsion/R/HaploCodeClass.R
inveRsion/R/genoDatClass.R
inveRsion/R/inversionListClass.R
inveRsion/R/scanClass.R
inveRsion/R/zzz.R
inveRsion/build
inveRsion/build/vignette.rds
inveRsion/data
inveRsion/data/ac.RData
inveRsion/data/gDat.RData
inveRsion/data/hapCode.RData
inveRsion/data/invList.RData
inveRsion/data/scanRes.RData
inveRsion/inst
inveRsion/inst/doc
inveRsion/inst/doc/inveRsion.R
inveRsion/inst/doc/inveRsion.Rnw
inveRsion/inst/doc/inveRsion.pdf
inveRsion/inst/extdata
inveRsion/inst/extdata/genotypes.txt
inveRsion/inst/extdata/h.txt
inveRsion/inst/extdata/haplotypesROI.txt
inveRsion/inst/extdata/mem.txt
inveRsion/man
inveRsion/man/GenoDat-class.Rd
inveRsion/man/GenoDatROI-class.Rd
inveRsion/man/HaploCode-class.Rd
inveRsion/man/ac.Rd
inveRsion/man/accBic.Rd
inveRsion/man/accuracy-class.Rd
inveRsion/man/codeHaplo.Rd
inveRsion/man/gDat.Rd
inveRsion/man/getClassif-methods.Rd
inveRsion/man/getInv-methods.Rd
inveRsion/man/getROIs-methods.Rd
inveRsion/man/hapCode.Rd
inveRsion/man/invList.Rd
inveRsion/man/inveRsion-internal.Rd
inveRsion/man/inveRsion-package.Rd
inveRsion/man/inversion-class.Rd
inveRsion/man/inversionList-class.Rd
inveRsion/man/listInv-methods.Rd
inveRsion/man/scan-class.Rd
inveRsion/man/scanInv.Rd
inveRsion/man/scanRes.Rd
inveRsion/man/setUpGenoDatFile.Rd
inveRsion/src
inveRsion/src/Makevars
inveRsion/src/init_inveRsion.c
inveRsion/src/inversion.h
inveRsion/src/inversionModel.c
inveRsion/src/writeGenoDat.c
inveRsion/vignettes
inveRsion/vignettes/Manual.pdf
inveRsion/vignettes/inveRsion.Rnw