Files in gtonkinhill/fastbaps
A fast genetic clustering algorithm that approximates a Dirichlet Process Mixture model
.github/workflows/R-CMD-check.yaml
.gitignore
DESCRIPTION
LICENSE.md
NAMESPACE
R/RcppExports.R
R/as.phylo.hclust.node.attributes.R
R/best_baps_partition.R
R/boot_fast_baps.R
R/calc_marginal_llk.R
R/fast_baps.R
R/find_max_cluster_subset.R
R/fix_clusters.R
R/get_hclust.R
R/import_fasta_sparse_nt.R
R/iorder.R
R/multi_level_best_baps_partition.R
R/multi_res_baps.R
R/optimise_prior.R
R/root_mll.R
R/snp_dist.R
R/snp_similarity.R
README.Rmd
README.md
fastbaps.Rproj
inst/CITATION
inst/extdata/seqs.fa
inst/extdata/seqs.fa.treefile
inst/run_fastbaps
inst/vignette-supp/unnamed-chunk-12-1.png
inst/vignette-supp/unnamed-chunk-13-1.png
inst/vignette-supp/unnamed-chunk-14-1.png
inst/vignette-supp/unnamed-chunk-15-1.png
inst/vignette-supp/unnamed-chunk-16-1.png
inst/vignette-supp/unnamed-chunk-17-1.png
inst/vignette-supp/unnamed-chunk-18-1.png
inst/vignette-supp/unnamed-chunk-19-1.png
man/as.phylo.hclust.node.attributes.Rd
man/best_baps_partition.Rd
man/boot_fast_baps.Rd
man/calc_marginal_llk.Rd
man/fast_baps.Rd
man/find_max_cluster_subset.Rd
man/fix_clusters.Rd
man/get_hclust.Rd
man/import_fasta_sparse_nt.Rd
man/iorder.Rd
man/multi_level_best_baps_partition.Rd
man/multi_res_baps.Rd
man/optimise_prior.Rd
man/snp_dist.Rd
man/snp_similarity.Rd
src/Makevars
src/Makevars.win
src/RcppExports.cpp
src/bhier.cpp
src/bhier_parallel.cpp
src/calc_ddk.cpp
src/import_fasta_to_vector_each_nt.cpp
src/kseq.h
src/log_add_sub.cpp
src/log_add_sub.h
src/part_llks.cpp
src/summarise_clusters.cpp
src/tree_llk.cpp
vignettes/bibliography.bib
vignettes/introduction.Rmd
