mmollina / MAPpoly

Compare c97f84a ... +0 ... 65b5957

71.05% ø +0.01%

Overview Diff Coverage Changes
1
 Files Commits
Coverage Reach
R/utils.R R/est_map_hmm.R R/pairwise_rf.R R/read_mappoly.R R/check_phase_configurations.R R/filters.R R/read_mappoly_vcf.R R/haplotype_map_utils.R R/preferential_pairing.R R/make_seq.R R/read_fitpoly.R R/read_mappoly_prob.R R/import_from_polymapR.R R/merge_maps.R R/get_counts.R R/rf_list_to_matrix.R R/mds.R R/marker_info.R R/calc_genoprob.R R/simulation_utils.R R/reestimate_map_with_global_genotypic_error.R R/read_mappoly_csv.R R/group.R R/calc_genoprob_error.R R/get_submap.R R/homolog_probs.R R/cache_twopts.R R/import_from_updog.R R/calc_genoprob_dist.R R/plot_map_list.R R/reestimate_map.R R/reestimate_map_with_prior_genotypic_probability.R R/split_and_rephase.R R/plot_genome_vs_map.R R/single_map_hmm.R R/sim_homologous.R R/export_map_list.R R/poly_cross_simulate.R R/rf_snp_filter.R R/eliminate_redundant.R R/get_counts_from_web.R R/prior_dist_hmm.R R/loglike_hmm.R R/make_mat.R R/segreg_poly.R R/make_pairs.R R/zzz.R src/pairwise_estimation.cpp src/est_hmm_map_based_on_phased_mrk_blocks.cpp src/est_map_hmm_given_prior.cpp src/est_map_hmm_given_dose.cpp src/read_mappoly_vcf.cpp src/hmm_elements.cpp src/calc_genoprob_based_on_phased_marker_blocks.cpp src/combinatorial.cpp src/calc_genoprob.cpp src/calc_loglike_given_map.cpp src/genotypic_counts.cpp src/mappoly_init.c

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Changes in R/filters.R
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2 Commits

Marcelo Mollinari
71.05% ø +0.01%
Update README.md
mmollina
65b5957
CI Passed
+1
-1
Marcelo Mollinari
71.03% ø -0.01%
Update README.md
mmollina
c97f84a
CI Passed
Files Coverage
R/cache_twopts.R 57.50%
R/calc_genoprob.R 82.22%
R/calc_genoprob_dist.R 81.54%
R/calc_genoprob_error.R 92.68%
R/check_phase_configurations.R 75.89%
R/eliminate_redundant.R 52.00%
R/est_map_hmm.R 82.24%
R/export_map_list.R 87.50%
R/filters.R 0.46% 48.86%
R/get_counts.R 77.14%
R/get_counts_from_web.R 50.00%
R/get_submap.R 66.67%
R/group.R 45.88%
R/haplotype_map_utils.R 78.80%
R/homolog_probs.R 72.50%
R/import_from_polymapR.R 0.00%
R/import_from_updog.R 0.00%
R/loglike_hmm.R 90.48%
R/make_mat.R 80.00%
R/make_pairs.R 78.57%
R/make_seq.R 27.84%
R/marker_info.R 96.30%
R/mds.R 45.53%
R/merge_maps.R 95.77%
R/pairwise_rf.R 63.86%
R/plot_genome_vs_map.R 78.57%
R/plot_map_list.R 90.48%
R/poly_cross_simulate.R 93.10%
R/preferential_pairing.R 63.89%
R/prior_dist_hmm.R 95.24%
R/read_fitpoly.R 65.64%
R/read_mappoly.R 74.90%
R/read_mappoly_csv.R 96.51%
R/read_mappoly_prob.R 71.25%
R/read_mappoly_vcf.R 68.84%
R/reestimate_map.R 70.37%
R/reestimate_map_with_global_genotypic_error.R 84.27%
R/reestimate_map_with_prior_genotypic_probability.R 69.23%
R/rf_list_to_matrix.R 48.91%
R/rf_snp_filter.R 92.00%
R/segreg_poly.R 92.86%
R/sim_homologous.R 94.87%
R/simulation_utils.R 65.56%
R/single_map_hmm.R 92.86%
R/split_and_rephase.R 70.83%
R/utils.R 76.03%
R/zzz.R 100.00%
src/calc_genoprob.cpp 100.00%
src/calc_genoprob_based_on_phased_marker_blocks.cpp 47.95%
src/calc_loglike_given_map.cpp 88.00%
src/combinatorial.cpp 100.00%
src/est_hmm_map_based_on_phased_mrk_blocks.cpp 42.51%
src/est_map_hmm_given_dose.cpp 83.55%
src/est_map_hmm_given_prior.cpp 94.21%
src/genotypic_counts.cpp 100.00%
src/hmm_elements.cpp 80.00%
src/mappoly_init.c 0.00%
src/pairwise_estimation.cpp 100.00%
src/read_mappoly_vcf.cpp 55.83%
Project Totals (59 files) 71.05%
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