Man pages for tpbilton/GUSMap
Genotyping Uncertainty with Sequencing Data and Linkage Mapping (GUSMap)
| BC | BC object |
| cash-addBIsnps | BC and FS method: Add BI SNPs to existing linkage groups |
| cash-addSNPs | BC and FS method: Add MI, PI and SI SNPs to existing linkage... |
| cash-computeMap | BC, FS and IC method: Compute ordered linkage maps |
| cash-createLG | BC, FS and IC method: Create linkage groups |
| cash-maskSNP | BC, FS and IC method: Mask and unmask SNPs |
| cash-mergeLG | BC, FS and IC method: Merge linkage groups |
| cash-orderLG | BC, FS and IC method: Order linkage groups |
| cash-plotChr | BC, FS and IC method: Heatmap of 2-point rf and LOD estimates... |
| cash-plotLG | BC, FS and IC method: Heatmap of 2-point rf and LOD estimates... |
| cash-plotLM | BC, FS and IC method: Plot linkage maps |
| cash-plotSyn | BC, FS and IC method: Produce synteny plot |
| cash-print | BC, FS and IC method: Print summary information |
| cash-removeLG | BC, FS and IC method: Remove linkage groups |
| cash-removeSNP | BC, FS and IC method: Remove SNP from linkage groups |
| cash-rf_2pt | BC, FS, and IC method: Compute 2-point recombination fraction... |
| cash-writeLM | BC, FS and IC method: Write linkage groups/maps to file |
| FS | FS object |
| GUSMap-package | Genotyping Uncertainty with Sequencing data for linkage... |
| IC | IC object |
| makeBC | Make a backcross (BC) population |
| makeFS | Make a full-sib family (FS) population |
| makeIC | Make a intercross (IC) population |
| Manuka11 | Manuka chromosome 11 SNPs and pedigree file |
| mfun | Mapping functions |
| simFS | Simulation sequencing data for full-sib families. |
