Files in jtmccr1/HIVEr
Analysis of transmission and intrahost iSNV data taken as part of the HIVE cohort
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
R/comparing_freqs.R
R/data.R
R/meta_munging.R
R/mutational_model.R
R/processing_snv.R
R/transmission.R
R/transmission_models.R
R/zzz.R
README.md
data-raw/accuracy_stringent.R
data-raw/small_community.comp.R
data-raw/small_isnv.R
data-raw/small_meta.R
data-raw/small_trans.R
data-raw/variants.R
data/accuracy_stringent.rda
data/small_community.comp.rda
data/small_isnv.rda
data/small_meta.rda
data/small_trans.rda
data/variants.rda
man/L.Nb.beta.Rd
man/accuracy_stringent.Rd
man/betabin_sim.Rd
man/betabin_sim_helper.Rd
man/com_sample_trans.Rd
man/correct_id.Rd
man/dist_prob.Rd
man/dist_prob_wrapper.Rd
man/dist_tp.Rd
man/diverse_sites.Rd
man/dzpois.Rd
man/equal_compare.Rd
man/finding_valid.Rd
man/g_ft.Rd
man/get_close.Rd
man/get_double.Rd
man/get_freqs.Rd
man/getting_tp.Rd
man/is_wholenumber.Rd
man/longform_pairs.Rd
man/math_fit.Rd
man/model_summary.Rd
man/monomorphic.Rd
man/mut_model_LL.Rd
man/not_detected.Rd
man/only_one.Rd
man/p0.Rd
man/p_all.Rd
man/pa_sim.Rd
man/pa_sim_helper.Rd
man/polish_freq.Rd
man/quality.Rd
man/read_rbind.Rd
man/rzpois.Rd
man/sample_trans.Rd
man/short_pairs.Rd
man/sift_dups.Rd
man/simulations.Rd
man/small_community.comp.Rd
man/small_isnv.Rd
man/small_meta.Rd
man/small_trans.Rd
man/split_path.Rd
man/trans_fit.Rd
man/variants.Rd
tests/testthat.R
tests/testthat/test-comparing_freqs.R
tests/testthat/test-meta_munging.R
tests/testthat/test-mutational_model.R
tests/testthat/test-processing.R
tests/testthat/test-transmission.R
tests/testthat/test-transmissionmodels.R
