From 451aad0ae0b3c9ef5e33786b6247fcac62124b3a Mon Sep 17 00:00:00 2001 From: Gregor Gorjanc Date: Wed, 11 Dec 2024 09:16:15 +0000 Subject: [PATCH] Added BosTau Boitard et al. (2016) parameter tables for docs --- docs/parameter_tables/BosTau/Angus_1B16.csv | 44 +++++++++++++++++++ .../BosTau/Fleckvieh_1B16.csv | 44 +++++++++++++++++++ .../BosTau/HolsteinFriesian_1B16.csv | 44 +++++++++++++++++++ docs/parameter_tables/BosTau/Jersey_1B16.csv | 44 +++++++++++++++++++ 4 files changed, 176 insertions(+) create mode 100644 docs/parameter_tables/BosTau/Angus_1B16.csv create mode 100644 docs/parameter_tables/BosTau/Fleckvieh_1B16.csv create mode 100644 docs/parameter_tables/BosTau/HolsteinFriesian_1B16.csv create mode 100644 docs/parameter_tables/BosTau/Jersey_1B16.csv diff --git a/docs/parameter_tables/BosTau/Angus_1B16.csv b/docs/parameter_tables/BosTau/Angus_1B16.csv new file mode 100644 index 000000000..22685ea58 --- /dev/null +++ b/docs/parameter_tables/BosTau/Angus_1B16.csv @@ -0,0 +1,44 @@ +Population size,"33,810",Ancestral population size +Population size,"56,981",Pop. size during 1st time interval +Population size,"85,228",Pop. size during 2nd time interval +Population size,"87,426",Pop. size during 3rd time interval +Population size,"83,576",Pop. size during 4th time interval +Population size,"80,651",Pop. size during 5th time interval +Population size,"69,328",Pop. size during 6th time interval +Population size,"56,775",Pop. size during 7th time interval +Population size,"47,892",Pop. size during 8th time interval +Population size,"35,998",Pop. size during 9th time interval +Population size,"24,300",Pop. size during 10th time interval +Population size,"16,441",Pop. size during 11th time interval +Population size,"12,042",Pop. size during 12th time interval +Population size,"10,827",Pop. size during 13th time interval +Population size,"6,837",Pop. size during 14th time interval +Population size,"4,836",Pop. size during 15th time interval +Population size,"2,558",Pop. size during 16th time interval +Population size,"1,224",Pop. size during 17th time interval +Population size,"709",Pop. size during 18th time interval +Population size,"412",Pop. size during 19th time interval +Population size,"291",Pop. size during 20th time interval +Time (gen.),"129,999",Begining of 1st time interval +Time (gen.),"83,043",Begining of 2nd time interval +Time (gen.),"53,045",Begining of 3rd time interval +Time (gen.),"33,881",Begining of 4th time interval +Time (gen.),"21,638",Begining of 5th time interval +Time (gen.),"13,817",Begining of 6th time interval +Time (gen.),"8,821",Begining of 7th time interval +Time (gen.),"5,629",Begining of 8th time interval +Time (gen.),"3,590",Begining of 9th time interval +Time (gen.),"2,287",Begining of 10th time interval +Time (gen.),"1,455",Begining of 11th time interval +Time (gen.),"923",Begining of 12th time interval +Time (gen.),"584",Begining of 13th time interval +Time (gen.),"367",Begining of 14th time interval +Time (gen.),"228",Begining of 15th time interval +Time (gen.),"139",Begining of 16th time interval +Time (gen.),"83",Begining of 17th time interval +Time (gen.),"47",Begining of 18th time interval +Time (gen.),"24",Begining of 19th time interval +Time (gen.),"9",Begining of 20th time interval +Generation time (yrs.),5,Generation time +Mutation rate,1e-8,Per-base per-generation mutation rate +Recombination rate,5.00e-9,Per-base per-generation recombination rate diff --git a/docs/parameter_tables/BosTau/Fleckvieh_1B16.csv b/docs/parameter_tables/BosTau/Fleckvieh_1B16.csv new file mode 100644 index 000000000..9f02fa41c --- /dev/null +++ b/docs/parameter_tables/BosTau/Fleckvieh_1B16.csv @@ -0,0 +1,44 @@ +Population size,"31,131",Ancestral population size +Population size,"70,789",Pop. size during 1st time interval +Population size,"91,228",Pop. size during 2nd time interval +Population size,"85,607",Pop. size during 3rd time interval +Population size,"82,448",Pop. size during 4th time interval +Population size,"82,844",Pop. size during 5th time interval +Population size,"72,920",Pop. size during 6th time interval +Population size,"61,479",Pop. size during 7th time interval +Population size,"54,358",Pop. size during 8th time interval +Population size,"38,069",Pop. size during 9th time interval +Population size,"28,547",Pop. size during 10th time interval +Population size,"20,963",Pop. size during 11th time interval +Population size,"18,176",Pop. size during 12th time interval +Population size,"13,604",Pop. size during 13th time interval +Population size,"10,546",Pop. size during 14th time interval +Population size,"7,414",Pop. size during 15th time interval +Population size,"5,689",Pop. size during 16th time interval +Population size,"4,184",Pop. size during 17th time interval +Population size,"3,395",Pop. size during 18th time interval +Population size,"2,812",Pop. size during 19th time interval +Population size,"2,227",Pop. size during 20th time interval +Time (gen.),"129,999",Begining of 1st time interval +Time (gen.),"83,043",Begining of 2nd time interval +Time (gen.),"53,045",Begining of 3rd time interval +Time (gen.),"33,881",Begining of 4th time interval +Time (gen.),"21,638",Begining of 5th time interval +Time (gen.),"13,817",Begining of 6th time interval +Time (gen.),"8,821",Begining of 7th time interval +Time (gen.),"5,629",Begining of 8th time interval +Time (gen.),"3,590",Begining of 9th time interval +Time (gen.),"2,287",Begining of 10th time interval +Time (gen.),"1,455",Begining of 11th time interval +Time (gen.),"923",Begining of 12th time interval +Time (gen.),"584",Begining of 13th time interval +Time (gen.),"367",Begining of 14th time interval +Time (gen.),"228",Begining of 15th time interval +Time (gen.),"139",Begining of 16th time interval +Time (gen.),"83",Begining of 17th time interval +Time (gen.),"47",Begining of 18th time interval +Time (gen.),"24",Begining of 19th time interval +Time (gen.),"9",Begining of 20th time interval +Generation time (yrs.),5,Generation time +Mutation rate,1e-8,Per-base per-generation mutation rate +Recombination rate,3.89e-9,Per-base per-generation recombination rate diff --git a/docs/parameter_tables/BosTau/HolsteinFriesian_1B16.csv b/docs/parameter_tables/BosTau/HolsteinFriesian_1B16.csv new file mode 100644 index 000000000..1e204fd27 --- /dev/null +++ b/docs/parameter_tables/BosTau/HolsteinFriesian_1B16.csv @@ -0,0 +1,44 @@ +Population size,"31,652",Ancestral population size +Population size,"65,485",Pop. size during 1st time interval +Population size,"86,206",Pop. size during 2nd time interval +Population size,"79,079",Pop. size during 3rd time interval +Population size,"71,209",Pop. size during 4th time interval +Population size,"72,841",Pop. size during 5th time interval +Population size,"63,092",Pop. size during 6th time interval +Population size,"52,882",Pop. size during 7th time interval +Population size,"50,726",Pop. size during 8th time interval +Population size,"36,512",Pop. size during 9th time interval +Population size,"27,155",Pop. size during 10th time interval +Population size,"23,783",Pop. size during 11th time interval +Population size,"20,159",Pop. size during 12th time interval +Population size,"15,602",Pop. size during 13th time interval +Population size,"11,367",Pop. size during 14th time interval +Population size,"6,908",Pop. size during 15th time interval +Population size,"3,892",Pop. size during 16th time interval +Population size,"1,815",Pop. size during 17th time interval +Population size,"1,320",Pop. size during 18th time interval +Population size,"1,076",Pop. size during 19th time interval +Population size,"793",Pop. size during 20th time interval +Time (gen.),"129,999",Begining of 1st time interval +Time (gen.),"83,043",Begining of 2nd time interval +Time (gen.),"53,045",Begining of 3rd time interval +Time (gen.),"33,881",Begining of 4th time interval +Time (gen.),"21,638",Begining of 5th time interval +Time (gen.),"13,817",Begining of 6th time interval +Time (gen.),"8,821",Begining of 7th time interval +Time (gen.),"5,629",Begining of 8th time interval +Time (gen.),"3,590",Begining of 9th time interval +Time (gen.),"2,287",Begining of 10th time interval +Time (gen.),"1,455",Begining of 11th time interval +Time (gen.),"923",Begining of 12th time interval +Time (gen.),"584",Begining of 13th time interval +Time (gen.),"367",Begining of 14th time interval +Time (gen.),"228",Begining of 15th time interval +Time (gen.),"139",Begining of 16th time interval +Time (gen.),"83",Begining of 17th time interval +Time (gen.),"47",Begining of 18th time interval +Time (gen.),"24",Begining of 19th time interval +Time (gen.),"9",Begining of 20th time interval +Generation time (yrs.),5,Generation time +Mutation rate,1e-8,Per-base per-generation mutation rate +Recombination rate,3.66e-9,Per-base per-generation recombination rate diff --git a/docs/parameter_tables/BosTau/Jersey_1B16.csv b/docs/parameter_tables/BosTau/Jersey_1B16.csv new file mode 100644 index 000000000..e2db71f80 --- /dev/null +++ b/docs/parameter_tables/BosTau/Jersey_1B16.csv @@ -0,0 +1,44 @@ +Population size,"30,275",Ancestral population size +Population size,"53,856",Pop. size during 1st time interval +Population size,"76,905",Pop. size during 2nd time interval +Population size,"67,505",Pop. size during 3rd time interval +Population size,"75,739",Pop. size during 4th time interval +Population size,"77,971",Pop. size during 5th time interval +Population size,"78,608",Pop. size during 6th time interval +Population size,"63,277",Pop. size during 7th time interval +Population size,"51,777",Pop. size during 8th time interval +Population size,"33,713",Pop. size during 9th time interval +Population size,"22,549",Pop. size during 10th time interval +Population size,"13,960",Pop. size during 11th time interval +Population size,"13,460",Pop. size during 12th time interval +Population size,"10,474",Pop. size during 13th time interval +Population size,"8,106",Pop. size during 14th time interval +Population size,"5,766",Pop. size during 15th time interval +Population size,"3,704",Pop. size during 16th time interval +Population size,"1,640",Pop. size during 17th time interval +Population size,"947",Pop. size during 18th time interval +Population size,"561",Pop. size during 19th time interval +Population size,"388",Pop. size during 20th time interval +Time (gen.),"129,999",Begining of 1st time interval +Time (gen.),"83,043",Begining of 2nd time interval +Time (gen.),"53,045",Begining of 3rd time interval +Time (gen.),"33,881",Begining of 4th time interval +Time (gen.),"21,638",Begining of 5th time interval +Time (gen.),"13,817",Begining of 6th time interval +Time (gen.),"8,821",Begining of 7th time interval +Time (gen.),"5,629",Begining of 8th time interval +Time (gen.),"3,590",Begining of 9th time interval +Time (gen.),"2,287",Begining of 10th time interval +Time (gen.),"1,455",Begining of 11th time interval +Time (gen.),"923",Begining of 12th time interval +Time (gen.),"584",Begining of 13th time interval +Time (gen.),"367",Begining of 14th time interval +Time (gen.),"228",Begining of 15th time interval +Time (gen.),"139",Begining of 16th time interval +Time (gen.),"83",Begining of 17th time interval +Time (gen.),"47",Begining of 18th time interval +Time (gen.),"24",Begining of 19th time interval +Time (gen.),"9",Begining of 20th time interval +Generation time (yrs.),5,Generation time +Mutation rate,1e-8,Per-base per-generation mutation rate +Recombination rate,4.58e-9,Per-base per-generation recombination rate