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Some gap filling #95

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Some gap filling #95

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a3344dd
added some lat/longs for Gonzales Fortes 2017
stschiff Oct 1, 2022
10aad84
added some Lat/Longs in 2018_FregelPNAS, but not all
stschiff Oct 1, 2022
b784ada
added Lat Long for Ciempozuelos
stschiff Oct 1, 2022
43fd70e
added Lat/Long for La Magdalena
stschiff Oct 1, 2022
1e6f9db
Filled Lat/Long in 2018_ValdioseraPNAS
stschiff Oct 1, 2022
0bea6b2
added Lat/Longs in 2019_Vilalba
stschiff Oct 1, 2022
e421d8d
fixed two bugs
stschiff Oct 1, 2022
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6 changes: 3 additions & 3 deletions 2017_GonzalesFortesCurrentBiology/2017_GonzalesFortesCurrentBiology.janno
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Poseidon_ID Genetic_Sex Group_Name Collection_ID Country Location Latitude Longitude Date_Type Date_C14_Labnr Date_C14_Uncal_BP Date_C14_Uncal_BP_Err Date_BC_AD_Start Date_BC_AD_Median Date_BC_AD_Stop Y_Haplogroup Capture_Type UDG Library_Built Genotype_Ploidy Nr_SNPs Coverage_on_Target_SNPs Publication Note Genetic_Source_Accession_IDs
Canes.SG F Iberia_HG.SG Canes Spain Canes n/a n/a C14 OxA-7148 or AA-5294 6197 45 -5295 -5165 -5035 n/a Shotgun minus ds haploid 804993 1.839464 GonzalesFortesCurrentBiology2017 PASS (literature) PRJEB20614 / PRJEB20616
Chan.SG F Iberia_HG.SG Chan Spain Chan do Lindeiro n/a n/a C14 Ua-13398 or Ua-38115 8155 42 -7305 -7181 -7057 n/a Shotgun minus ds haploid 1036284 5.740226 GonzalesFortesCurrentBiology2017 PASS (literature) PRJEB20614 / PRJEB20616
GB.SG F Romania_C.SG GB Romania Gura Baciului n/a n/a C14 MAMS-28614 4621 28 -3506 -3428 -3349 n/a Shotgun minus ds haploid 1116974 3.835538 GonzalesFortesCurrentBiology2017 PASS (literature) PRJEB20614 / PRJEB20616
Canes.SG F Iberia_HG.SG Canes Spain Canes 43.59968 -4.82601 C14 OxA-7148 or AA-5294 6197 45 -5295 -5165 -5035 n/a Shotgun minus ds haploid 804993 1.839464 GonzalesFortesCurrentBiology2017 PASS (literature) PRJEB20614 / PRJEB20616
Chan.SG F Iberia_HG.SG Chan Spain Chan do Lindeiro 42.63792 -7.18179 C14 Ua-13398 or Ua-38115 8155 42 -7305 -7181 -7057 n/a Shotgun minus ds haploid 1036284 5.740226 GonzalesFortesCurrentBiology2017 PASS (literature) PRJEB20614 / PRJEB20616
GB.SG F Romania_C.SG GB Romania Gura Baciului 46.83262 23.50786 C14 MAMS-28614 4621 28 -3506 -3428 -3349 n/a Shotgun minus ds haploid 1116974 3.835538 GonzalesFortesCurrentBiology2017 PASS (literature) PRJEB20614 / PRJEB20616
M95.SG M Romania_Mesolithic_IronGates.SG M95 Romania Schela Cladovei 44.62971 22.61256 C14 OxA-8583 8380 80 -7125 -6864 -6603 R1b1a Shotgun minus ds haploid 733033 1.017986 GonzalesFortesCurrentBiology2017 PASS (literature) PRJEB20614 / PRJEB20616
M96.SG M Romania_Mesolithic_IronGates.SG M96 Romania Schela Cladovei 44.62971 22.61256 contextual n/a n/a n/a -7250 -6875 -6500 R1b1a(xR1b1a1a)) Shotgun minus ds haploid 1075084 2.67051 GonzalesFortesCurrentBiology2017 PASS (literature) PRJEB20614 / PRJEB20616
OC.SG M Romania_Mesolithic_IronGates.SG I5408 Romania Ostrovul Corbului 44.517 22.722 C14 MAMS-28615 8277 34 -7022 -6754 -6485 R1b1a(xR1b1a1a) Shotgun minus ds haploid 950046 1.742421 GonzalesFortesCurrentBiology2017 PASS (literature) PRJEB20614 / PRJEB20616
26 changes: 13 additions & 13 deletions 2018_FregelPNAS/2018_FregelPNAS.janno
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Poseidon_ID Genetic_Sex Group_Name Collection_ID Country Location Date_Type Date_C14_Labnr Date_C14_Uncal_BP Date_C14_Uncal_BP_Err Date_BC_AD_Start Date_BC_AD_Median Date_BC_AD_Stop Y_Haplogroup Capture_Type UDG Library_Built Genotype_Ploidy Nr_SNPs Coverage_on_Target_SNPs Primary_Contact Publication Note Genetic_Source_Accession_IDs
BOT.1 U Morocco_unknown BOT.1 Morocco n/a contextual n/a n/a n/a -8400 -6000 -3600 n/a OtherCapture minus ds haploid 53448 0.045804 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
IAM.3.SG F Morocco_EN_lc.SG IAM.3 Morocco Ifri n'Amr or Moussa C14 Beta-443598 6290 40 -5325 -5268 -5210 n/a OtherCapture minus ds haploid 10664 0.009112 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
IAM.6.SG F Morocco_EN.SG IAM.6 Morocco Ifri n'Amr or Moussa C14 Beta-443601 6210 30 -5290 -5175 -5060 n/a OtherCapture minus ds haploid 36246 0.032767 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
IAM.7.SG M Morocco_EN.SG IAM.7 Morocco Ifri n'Amr or Moussa C14 Beta-443602 6030 30 -5000 -4920 -4840 E1b1b OtherCapture minus ds haploid 89496 0.083964 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
KEB.4.SG F Morocco_LN.SG KEB.4 Morocco Kelif el Boroud contextual n/a n/a n/a -3800 -3700 -3600 n/a OtherCapture minus ds haploid 156837 0.164114 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
KEB.6.SG M Morocco_LN.SG KEB.6 Morocco Kelif el Boroud contextual n/a n/a n/a -3800 -3700 -3600 T-M184 OtherCapture minus ds haploid 75303 0.064759 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
TOR.11.SG F Iberia_EN.SG TOR.11 Spain El Toro C14 Beta-365287 6050 30 -5030 -4940 -4850 n/a OtherCapture minus ds haploid 38613 0.034039 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
TOR.6.SG F Iberia_EN.SG TOR.6 Spain El Toro contextual n/a n/a n/a -5280 -5030 -4780 n/a OtherCapture minus ds haploid 184336 0.19024 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
TOR.7.SG F Iberia_EN_1d.or.2d.rel.TOR.6.SG TOR.7 Spain El Toro contextual n/a n/a n/a -5280 -5030 -4780 n/a OtherCapture minus ds haploid 53224 0.048012 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
TOR.8.SG F Iberia_EN.SG TOR.8 Spain El Toro contextual n/a n/a n/a -5280 -5030 -4780 n/a OtherCapture minus ds haploid 97251 0.093723 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
IAM.4_IAM.5.SG M Morocco_EN.SG IAM.4.plus.5 Morocco Ifri n'Amr or Moussa C14 Beta-443599 6160 30 -5215 -5110 -5005 E1b1b1b1 OtherCapture minus ds haploid 619194 0.746077 FregelPNAS2018 FregelPNAS2018 PASS (literature) (merge.of.two.published.samplesfrom.this.paper.that.are.duplicates) PRJEB22699
KEB.1_KEB.8.SG F Morocco_LN.SG KEB.1.plus.8 Morocco Kelif el Boroud C14 Beta-443603 4940 30 -3780 -3715 -3650 n/a OtherCapture minus ds haploid 135590 0.122527 FregelPNAS2018 FregelPNAS2018 PASS (literature) (merge.of.two.published.samplesfrom.this.paper.that.are.duplicates) PRJEB22699
Poseidon_ID Genetic_Sex Group_Name Collection_ID Country Location Latitude Longitude Date_Type Date_C14_Labnr Date_C14_Uncal_BP Date_C14_Uncal_BP_Err Date_BC_AD_Start Date_BC_AD_Median Date_BC_AD_Stop Y_Haplogroup Capture_Type UDG Library_Built Genotype_Ploidy Nr_SNPs Coverage_on_Target_SNPs Primary_Contact Publication Note Genetic_Source_Accession_IDs
BOT.1 U Morocco_unknown BOT.1 Morocco n/a n/a n/a contextual n/a n/a n/a -8400 -6000 -3600 n/a OtherCapture minus ds haploid 53448 0.045804 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
IAM.3.SG F Morocco_EN_lc.SG IAM.3 Morocco Ifri n'Amr or Moussa n/a n/a C14 Beta-443598 6290 40 -5325 -5268 -5210 n/a OtherCapture minus ds haploid 10664 0.009112 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
IAM.6.SG F Morocco_EN.SG IAM.6 Morocco Ifri n'Amr or Moussa n/a n/a C14 Beta-443601 6210 30 -5290 -5175 -5060 n/a OtherCapture minus ds haploid 36246 0.032767 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
IAM.7.SG M Morocco_EN.SG IAM.7 Morocco Ifri n'Amr or Moussa n/a n/a C14 Beta-443602 6030 30 -5000 -4920 -4840 E1b1b OtherCapture minus ds haploid 89496 0.083964 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
KEB.4.SG F Morocco_LN.SG KEB.4 Morocco Kelif el Boroud n/a n/a contextual n/a n/a n/a -3800 -3700 -3600 n/a OtherCapture minus ds haploid 156837 0.164114 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
KEB.6.SG M Morocco_LN.SG KEB.6 Morocco Kelif el Boroud n/a n/a contextual n/a n/a n/a -3800 -3700 -3600 T-M184 OtherCapture minus ds haploid 75303 0.064759 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
TOR.11.SG F Iberia_EN.SG TOR.11 Spain El Toro 36.957222 -4.53611 C14 Beta-365287 6050 30 -5030 -4940 -4850 n/a OtherCapture minus ds haploid 38613 0.034039 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
TOR.6.SG F Iberia_EN.SG TOR.6 Spain El Toro 36.957222 -4.53611 contextual n/a n/a n/a -5280 -5030 -4780 n/a OtherCapture minus ds haploid 184336 0.19024 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
TOR.7.SG F Iberia_EN_1d.or.2d.rel.TOR.6.SG TOR.7 Spain El Toro 36.957222 -4.53611 contextual n/a n/a n/a -5280 -5030 -4780 n/a OtherCapture minus ds haploid 53224 0.048012 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
TOR.8.SG F Iberia_EN.SG TOR.8 Spain El Toro 36.957222 -4.53611 contextual n/a n/a n/a -5280 -5030 -4780 n/a OtherCapture minus ds haploid 97251 0.093723 FregelPNAS2018 FregelPNAS2018 PASS (literature) PRJEB22699
IAM.4_IAM.5.SG M Morocco_EN.SG IAM.4.plus.5 Morocco Ifri n'Amr or Moussa n/a n/a C14 Beta-443599 6160 30 -5215 -5110 -5005 E1b1b1b1 OtherCapture minus ds haploid 619194 0.746077 FregelPNAS2018 FregelPNAS2018 PASS (literature) (merge.of.two.published.samplesfrom.this.paper.that.are.duplicates) PRJEB22699
KEB.1_KEB.8.SG F Morocco_LN.SG KEB.1.plus.8 Morocco Kelif el Boroud n/a n/a C14 Beta-443603 4940 30 -3780 -3715 -3650 n/a OtherCapture minus ds haploid 135590 0.122527 FregelPNAS2018 FregelPNAS2018 PASS (literature) (merge.of.two.published.samplesfrom.this.paper.that.are.duplicates) PRJEB22699
8 changes: 4 additions & 4 deletions 2018_OlaldeNature/2018_OlaldeNature.janno
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Expand Up @@ -315,13 +315,13 @@ I5659 M Germany_BellBeaker I5659 Germany Irlbach LKR 48.841 12.75 contextual n/a
I5660_published M Germany_BellBeaker_1d.rel.I6624_published I5660 Germany Irlbach LKR 48.841 12.75 contextual n/a n/a n/a -2500 -2250 -2000 R1b1a1a2 tooth 1 1240K half ds haploid 58395 0.05 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS (literature) PRJEB23635
I5661_published M Germany_BellBeaker_published I5661 Germany Irlbach LKR 48.841 12.75 contextual n/a n/a n/a -2500 -2250 -2000 R1b1a1a2 tooth 1 1240K half ds haploid 90529 0.08 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS (literature) PRJEB23635
I5663_published M Germany_BellBeaker_published I5663 Germany Irlbach LKR 48.841 12.75 contextual n/a n/a n/a -2500 -2250 -2000 R1b tooth 1 1240K half ds haploid 23224 0.02 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS (literature) PRJEB23635
I5665 M Iberia_BellBeaker I5665 Spain Ciempozuelos, Burgos, Virgazal n/a n/a contextual n/a n/a n/a -2800 -2300 -1800 R1b1a1a2a1a2 tooth 1 1240K half ds haploid 485594 0.571 n/a 0.004161 0.007781212121212 X-based (unknown software) n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I5665 M Iberia_BellBeaker I5665 Spain Ciempozuelos, Burgos, Virgazal 40.16277 -3.61863 contextual n/a n/a n/a -2800 -2300 -1800 R1b1a1a2a1a2 tooth 1 1240K half ds haploid 485594 0.571 n/a 0.004161 0.007781212121212 X-based (unknown software) n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I5666 M Czech_BellBeaker I5666 Czech Republic Lochenice n/a n/a contextual n/a n/a n/a -2800 -2300 -1800 R1b1a1a2a1a2b1 tooth 1 1240K half ds haploid 285530 0.28 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I6466 M Iberia_BellBeaker_lc I6466 Portugal Lisbon, Verdelha dos Ruivos 38.875 -9.075 contextual n/a n/a n/a -2700 -2550 -2400 n/a tooth 1 1240K half ds haploid 3726 0.003 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 QUESTIONABLE (2500.to.5000.SNPs) PRJEB23635
I6467 F Iberia_BellBeaker_lc I6467 Portugal Lisbon, Verdelha dos Ruivos 38.875 -9.075 contextual n/a n/a n/a -2700 -2550 -2400 n/a tooth 1 1240K half ds haploid 11405 0.01 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I6468 F Czech_BellBeaker I6468 Czech Republic Velké Přílepy 50.16667 14.31667 contextual n/a n/a n/a -2500 -2200 -1900 n/a tooth 1 1240K half ds haploid 48724 0.042 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I6471_published M Iberia_BellBeaker_published I6471 Spain La Magdalena n/a n/a contextual n/a n/a n/a -2800 -2300 -1800 CT(xI,xG,xE) tooth 1 1240K half ds haploid 36656 0.031 n/a 0.418235 0.0418235 X-based (unknown software) missing errors automatically filled (0.1*the estimate) Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I6475 F Iberia_BellBeaker I6475 Spain La Magdalena n/a n/a contextual n/a n/a n/a -2800 -2300 -1800 n/a tooth 1 1240K half ds haploid 51993 0.045 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I6471_published M Iberia_BellBeaker_published I6471 Spain La Magdalena 42.80144 -5.79380 contextual n/a n/a n/a -2800 -2300 -1800 CT(xI,xG,xE) tooth 1 1240K half ds haploid 36656 0.031 n/a 0.418235 0.0418235 X-based (unknown software) missing errors automatically filled (0.1*the estimate) Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I6475 F Iberia_BellBeaker I6475 Spain La Magdalena 42.80144 -5.79380 contextual n/a n/a n/a -2800 -2300 -1800 n/a tooth 1 1240K half ds haploid 51993 0.045 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I6476 F Czech_BellBeaker I6476 Czech Republic Lovosice 50.51116 14.06342 contextual n/a n/a n/a -2500 -2150 -1800 n/a tooth 1 1240K half ds haploid 24307 0.021 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I6480 M Czech_BellBeaker I6480 Czech Republic Velké Přílepy 50.16667 14.31667 contextual n/a n/a n/a -2500 -2200 -1900 R1b1a1a2a1a2b1 tooth 1 1240K half ds haploid 428162 0.535 n/a 0.004934 0.007918787878788 X-based (unknown software) n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I6481 M Germany_BellBeaker_lc I6481 Germany Weichering n/a n/a contextual n/a n/a n/a -2800 -2300 -1800 BT tooth 1 1240K half ds haploid 6304 0.005 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
Expand Down Expand Up @@ -364,7 +364,7 @@ I3082 M England_MBA I3082 Great Britain England, Dorset, Sixpenny Handley, Canad
I4132 M Germany_BellBeaker_father.or.son.I4132 I4132 Germany Augsburg 48.33 10.895 contextual n/a n/a n/a -2500 -2250 -2000 R1b1a1a2a1a2 tooth 1 1240K half ds haploid 271486 0.272323 0.088 n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS (half-only merge) PRJEB23635
I4229 M Iberia_BellBeaker I4229 Portugal Cova da Moura 38.74504 -9.21522 C14 PSUAMS-1750;OxA-33490;OxA-33491 3775;3783;3790 25;29;30 -2336 -2200 -2063 I2a1a1 petrous 1 1240K half ds haploid 875453 3.609659 0.095 0.003572 0.001471515151515 X-based (unknown software) n/a Pinhasi, Ron OlaldeNature2018 PASS (Xcontam=0.004) PRJEB23635
I4245 F Iberia_BellBeaker I4245 Spain Madrid, San Fernando de Henares, Camino de las Yeseras 40.43972 -3.50639 C14 PSUAMS-2320 3875 20 -2461 -2376 -2292 n/a tooth 2 1240K half ds haploid 29597 0.025478 n/a n/a n/a n/a n/a Allentoft, Morten merged with Haak, Wolfgang OlaldeNature2018 QUESTIONABLE (mtcontam=0.874-1) PRJEB23635
I6472 M Iberia_BellBeaker I6472 Spain La Magdalena n/a n/a contextual n/a n/a n/a -2800 -2300 -1800 R1b1a1a2 tooth 2 1240K half ds haploid 188730 0.175766 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I6472 M Iberia_BellBeaker I6472 Spain La Magdalena 42.80144 -5.79380 contextual n/a n/a n/a -2800 -2300 -1800 R1b1a1a2 tooth 2 1240K half ds haploid 188730 0.175766 n/a n/a n/a n/a n/a Allentoft, Morten OlaldeNature2018 PASS PRJEB23635
I6750 M England_N I6750 Great Britain England, Wiltshire, Salisbury, Fussell's Lodge 51.09122 -1.72751 contextual n/a n/a n/a -3755 -3708 -3660 I2a2 n/a 1 1240K half ds haploid 418242 0.482649 0.043 0.009346 0.00706303030303 X-based (unknown software) n/a Brace, Selina OlaldeNature2018 PASS PRJEB23635
I6751 F England_N I6751 Great Britain England, Wiltshire, Salisbury, Fussell's Lodge 51.09122 -1.72751 contextual n/a n/a n/a -3755 -3688 -3620 n/a n/a 1 1240K half ds haploid 719644 1.86116 0.081 n/a n/a n/a n/a Brace, Selina OlaldeNature2018 PASS PRJEB23635
I6759 M England_N I6759 Great Britain England, North Yorkshire, Kelco Cave, Giggleswick Scar 54.07444 -2.28728 C14 n/a 4801 31 -3650 -3586 -3522 I2a1b n/a 1 1240K half ds haploid 774173 2.546105 0.087 0.011758 0.001964848484848 X-based (unknown software) n/a Brace, Selina OlaldeNature2018 PASS (Xcontam=0.011) PRJEB23635
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