Files in hahmmr

Haplotype-Aware Hidden Markov Model for RNA

README.md R/RcppExports.R R/vis.R R/hahmmr.R R/data.R R/distributions.R R/workflows.R tests/testthat.R tests/testthat/test_functions.R man/logSumExp.Rd man/segs_example.Rd man/check_cols.Rd man/df_allele_example.Rd man/get_trans_probs_s15.Rd man/analyze_allele.Rd man/smooth_segs.Rd man/run_joint_hmm_s15.Rd man/vcf_meta.Rd man/theta_hat_seg.Rd man/calc_allele_lik_s3.Rd man/dpoilog.Rd man/get_allele_bulk.Rd man/calc_allele_lik_s2.Rd man/l_lnpois.Rd man/viterbi_allele.Rd man/get_allele_hmm_s3.Rd man/dbbinom.Rd man/chrom_sizes_hg38.Rd man/run_joint_hmm_s7.Rd man/gtf_hg38.Rd man/combine_bulk.Rd man/gaps_hg19.Rd man/plot_bulks.Rd man/fit_gamma.Rd man/fit_lnpois_cpp.Rd man/calc_trans_mat_s7.Rd man/approx_phi_post.Rd man/approx_theta_post_s3.Rd man/fit_ref_sse.Rd man/run_allele_hmm_s5.Rd man/annot_cm.Rd man/get_trans_probs_s7.Rd man/generate_postfix.Rd man/chrom_sizes_hg19.Rd man/likelihood_allele.Rd man/viterbi_joint.Rd man/forward_back_allele.Rd man/get_bulk.Rd man/switch_prob_cm.Rd man/get_exp_bulk.Rd man/annot_segs.Rd man/gaps_hg38.Rd man/gene_counts_example.Rd man/classify_alleles.Rd man/filter_genes.Rd man/pre_likelihood_hmm.Rd man/check_matrix.Rd man/approx_theta_post_s2.Rd man/ref_hca.Rd man/calc_allele_LLR.Rd man/calc_exp_LLR.Rd man/l_bbinom.Rd man/analyze_joint.Rd man/acen_hg19.Rd man/ref_hca_counts.Rd man/run_allele_hmm_s3.Rd man/acen_hg38.Rd man/get_allele_hmm_s2.Rd man/calc_trans_mat_s15.Rd man/gtf_mm10.Rd man/bulk_example.Rd man/viterbi_joint_mat.Rd man/plot_psbulk.Rd man/gtf_hg19.Rd