GitHub - AdrianAllen1977/Genome-epidemiology-of-Mycobacterium-bovis-infection-in-contemporaneous-sympatric-badger-and-cattle: R Scripts and Supplementary Data and XML file for BDMM structured birth death model

Branches Tags

Name		Name	Last commit message	Last commit date
Latest commit History 25 Commits
AA Phylogenetic tree building.r		AA Phylogenetic tree building.r
ANCOVA.r		ANCOVA.r
Convert Excel to Genind.r		Convert Excel to Genind.r
Converting from NI grid refs to lat lon.r		Converting from NI grid refs to lat lon.r
Determining pairwise geographic distance between pairs of points.r		Determining pairwise geographic distance between pairs of points.r
FASTA name string extraction.r		FASTA name string extraction.r
GIS mapping in R.r		GIS mapping in R.r
Genome snp distance matrix notes.r		Genome snp distance matrix notes.r
Loop script to populate vectors from matrices.R		Loop script to populate vectors from matrices.R
Making a pairwise distance matrix between multi gps points.r		Making a pairwise distance matrix between multi gps points.r
Making a time difference matrix.r		Making a time difference matrix.r
Microsat distance matrix for animals.r		Microsat distance matrix for animals.r
Multiple Regression Distance Matrices.r		Multiple Regression Distance Matrices.r
Random subsample of fasta.r		Random subsample of fasta.r
Simple Phylogeny for Figures.r		Simple Phylogeny for Figures.r
Subsetting a larger fasta file.r		Subsetting a larger fasta file.r
Supplementary Data 2.xlsm		Supplementary Data 2.xlsm
Supplementary Data 3.xlsm		Supplementary Data 3.xlsm
Supplementary Data 4.xlsx		Supplementary Data 4.xlsx
Supplementary data 1.xlsx		Supplementary data 1.xlsx
TVR_Skyline_realxed_Transphylo_edge_MCC.nwk		TVR_Skyline_realxed_Transphylo_edge_MCC.nwk
TVR_Skyline_strict_Transphylo_edge_MCC.nwk		TVR_Skyline_strict_Transphylo_edge_MCC.nwk
TVR_endemic_BDMM_strict_1.xml		TVR_endemic_BDMM_strict_1.xml
Tip randomisation of XML files for temporal signal check.r		Tip randomisation of XML files for temporal signal check.r
TransPhylo.r		TransPhylo.r
ggtree phylogenetics.r		ggtree phylogenetics.r