Package: statgenMPP 1.0.3
statgenMPP: QTL Mapping for Multi Parent Populations
For Multi Parent Populations (MPP) Identity By Descend (IBD) probabilities are computed using Hidden Markov Models. These probabilities are then used in a mixed model approach for QTL Mapping as described in Li et al. (<doi:10.1007/s00122-021-03919-7>).
Authors:
statgenMPP_1.0.3.tar.gz
statgenMPP_1.0.3.tar.gz(r-4.5-noble)statgenMPP_1.0.3.tar.gz(r-4.4-noble)
statgenMPP_1.0.3.tgz(r-4.4-emscripten)statgenMPP_1.0.3.tgz(r-4.3-emscripten)
statgenMPP.pdf |statgenMPP.html✨
statgenMPP/json (API)
NEWS
# Install 'statgenMPP' in R: |
install.packages('statgenMPP', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
- barleyMQM - Pre-computed MQM output barley
- barleyPheno - Phenotypic data for awn length in barley
- maizeMQM - Pre-computed MQM output maize
- maizeSQM - Pre-computed SQM output maize
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 days agofrom:f8c45ac27c. Checks:OK: 2. Indexed: no.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 30 2024 |
R-4.5-linux | OK | Oct 30 2024 |
Exports:calcIBDMPPcreateGDataMPPkinshipIBDreadRABBITMPPselQTLMPP
Dependencies:agridatclassclassIntclicodetoolscolorspacecrayondata.tableDBIdotCall64e1071fansifarverforeachggplot2gluegridExtragtableisobanditeratorsKernSmoothlabelinglatticelifecycleLMMsolvermagrittrmapsMASSMatrixmgcvmunsellnlmepillarpkgconfigproxyR6RColorBrewerRcppRcppArmadilloRcppProgressrlangs2scalessfsommerspamstatgenGWASstatgenIBDstringitibbleunitsutf8vctrsviridisLitewithrwk
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Pre-computed MQM output barley | barleyMQM |
Phenotypic data for awn length in barley | barleyPheno |
IBD calculation for multi parental populations | calcIBDMPP |
Create an object of class gDataMPP | createGDataMPP |
Compute kinship matrix for IBD probabilities | kinshipIBD |
Pre-computed MQM output maize | maizeMQM |
Pre-computed SQM output maize | maizeSQM |
Plot function for the class 'gDataMPP' | plot.gDataMPP |
Plot function for the class 'QTLMPP' | plot.QTLMPP |
Print summary of object of class 'summary.QTLMPP' | print.summary.QTLMPP |
Read IBD probabilities | readRABBITMPP |
Multi round genome scans for QTL detection | selQTLMPP |
Summary function for the class 'gDataMPP' | summary.gDataMPP |
Summary function for the class 'QTLMPP' | summary.QTLMPP |