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Thread: Global25 automated nMonte for South/Central Asian members

  1. #7751
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    Quote Originally Posted by Sapporo View Post
    @pegasus

    What settings did you use for that Kandahari's runs? Default pen + scaled with which batch and cycles settings? I wanted to do some similar runs on Genoplot.

    @kamil

    Same question to you for your SIS BA3 vs. SIS BA2 runs.
    Scaled and penalties: On, Grouping: Off
    G25 Neolithic model

    "sample": "kamil154",
    "distance": 2.2284,
    "Ganj_Dareh_N": 41,
    "Barcin_N": 18,
    "Simulated_AASI_NW_by_DMXX": 17,
    "Karelia_HG": 10.5,
    "GEO_CHG": 3.5,
    "Tyumen_HG": 3,
    "LAO_Hoabinhian": 2.5,
    "LapaDoSanto_9600BP": 2.5,
    "Boshan_N": 2

  2. The Following User Says Thank You to kamil154 For This Useful Post:

     Sapporo (10-25-2020)

  3. #7752
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    Quote Originally Posted by pegasus View Post
    New Kandahar Pashtun sample ,

    "sample": "Kandahar2",
    "distance": 1.8006,
    "Sappali_Tepe_BA": 36.5,
    "Srubnaya_MLBA": 29.5,
    "CG_IVCp": 29,
    "Devils_Gate_Cave_N": 5


    "sample": "Kandahar2 ",
    "distance": 1.6332,
    "KAZ_Kangju": 46.5,
    "CG_IVCp": 34.5,
    "Caucasus_lowlands_LN": 10.5,
    "Gonur1_BA": 8.5,



    "sample": "Kandahar2",
    "distance": 1.6627,
    "CG_IVCp": 32,
    "KAZ_Kangju": 30,
    "TKM_IA": 18.5,
    "Caucasus_lowlands_LN": 9,
    "Gonur1_BA": 9,
    "Devils_Gate_Cave_N": 1.5




    "sample": "Kandahar2",
    "distance": 1.797,
    "TKM_IA": 47,
    "CG_IVCp": 31,
    "Caucasus_lowlands_LC": 10.5,
    "Sappali_Tepe_BA": 8,
    "Upper_Yellow_River_LN": 3.5

    distal proportions


    "sample": "Kandahar2",
    "distance": 2.8198,
    "Ganj_Dareh_N": 40.5,
    "Barcin_N": 21.5,
    "Simulated_AASI_by_DMXX": 10.5,
    "Sidelkino_HG": 9.5,
    "Tyumen_HG": 7.5,
    "GEO_CHG": 6,
    "Devils_Gate_Cave_N": 4.5
    Where did you find this sample, do you have their Coordinates? Do you have their HW scores too?
    G25 Neolithic model

    "sample": "kamil154",
    "distance": 2.2284,
    "Ganj_Dareh_N": 41,
    "Barcin_N": 18,
    "Simulated_AASI_NW_by_DMXX": 17,
    "Karelia_HG": 10.5,
    "GEO_CHG": 3.5,
    "Tyumen_HG": 3,
    "LAO_Hoabinhian": 2.5,
    "LapaDoSanto_9600BP": 2.5,
    "Boshan_N": 2

  4. The Following User Says Thank You to kamil154 For This Useful Post:

     Sapporo (10-25-2020)

  5. #7753
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    Quote Originally Posted by pegasus View Post

    "sample": "Punjabi Sikh India:Average",
    "distance": 1.1896,
    "Shahr_I_Sokhta_BA3": 46,
    "TKM_IA": 46,
    "Shahr_I_Sokhta_BA2": 8
    Why isn't it matching up with my runs?

    sample: kamil154
    distance: 2.633
    Shahr_I_Sokhta_BA2: 60.5
    TKM_IA: 34.5
    Chokhopani_2700BP: 3
    Shahr_I_Sokhta_BA3: 2

    sample: Khatri:Average
    distance: 1.7645
    Shahr_I_Sokhta_BA2: 60
    TKM_IA: 34.5
    Shahr_I_Sokhta_BA3: 3.5
    Chokhopani_2700BP: 2

    sample: Kamboj:Average
    distance: 1.9561
    Shahr_I_Sokhta_BA2: 54.5
    TKM_IA: 41
    Shahr_I_Sokhta_BA3: 2.5
    Chokhopani_2700BP: 2

    sample: Kohistani:Average
    distance: 2.0698
    Shahr_I_Sokhta_BA2: 58.5
    TKM_IA: 33
    Shahr_I_Sokhta_BA3: 5
    Chokhopani_2700BP: 3.5

    sample: Punjabi Sikh India:Average
    distance: 1.7692
    Shahr_I_Sokhta_BA2: 53
    TKM_IA: 38
    Shahr_I_Sokhta_BA3: 9
    G25 Neolithic model

    "sample": "kamil154",
    "distance": 2.2284,
    "Ganj_Dareh_N": 41,
    "Barcin_N": 18,
    "Simulated_AASI_NW_by_DMXX": 17,
    "Karelia_HG": 10.5,
    "GEO_CHG": 3.5,
    "Tyumen_HG": 3,
    "LAO_Hoabinhian": 2.5,
    "LapaDoSanto_9600BP": 2.5,
    "Boshan_N": 2

  6. #7754
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    Quote Originally Posted by kamil154 View Post
    Why isn't it matching up with my runs?

    sample: kamil154
    distance: 2.633
    Shahr_I_Sokhta_BA2: 60.5
    TKM_IA: 34.5
    Chokhopani_2700BP: 3
    Shahr_I_Sokhta_BA3: 2

    sample: Khatri:Average
    distance: 1.7645
    Shahr_I_Sokhta_BA2: 60
    TKM_IA: 34.5
    Shahr_I_Sokhta_BA3: 3.5
    Chokhopani_2700BP: 2

    sample: Kamboj:Average
    distance: 1.9561
    Shahr_I_Sokhta_BA2: 54.5
    TKM_IA: 41
    Shahr_I_Sokhta_BA3: 2.5
    Chokhopani_2700BP: 2

    sample: Kohistani:Average
    distance: 2.0698
    Shahr_I_Sokhta_BA2: 58.5
    TKM_IA: 33
    Shahr_I_Sokhta_BA3: 5
    Chokhopani_2700BP: 3.5

    sample: Punjabi Sikh India:Average
    distance: 1.7692
    Shahr_I_Sokhta_BA2: 53
    TKM_IA: 38
    Shahr_I_Sokhta_BA3: 9
    I used penalty=0 for mine. I don't know what you used for SIS2.

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     Jatt1 (10-29-2020)

  8. #7755
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    Quote Originally Posted by pegasus View Post
    I used penalty=0 for mine. I don't know what you used for SIS2.
    Here's how my GenoPlot settings look, for most runs:
    20201025_140010.jpg
    G25 Neolithic model

    "sample": "kamil154",
    "distance": 2.2284,
    "Ganj_Dareh_N": 41,
    "Barcin_N": 18,
    "Simulated_AASI_NW_by_DMXX": 17,
    "Karelia_HG": 10.5,
    "GEO_CHG": 3.5,
    "Tyumen_HG": 3,
    "LAO_Hoabinhian": 2.5,
    "LapaDoSanto_9600BP": 2.5,
    "Boshan_N": 2

  9. #7756
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    Quote Originally Posted by kamil154 View Post
    Here's how my GenoPlot settings look, for most runs:
    20201025_140010.jpg
    I use that for individuals most of the time unless they are noisy but for large groups/group avgs , penalty=0

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  11. #7757
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    Ran the basic IVC + BMAC + Steppe + excess East Eurasian model on the new Kandahar sample pegasus shared:

    Screen Shot 2020-10-27 at 7.23.17 AM.png


    It's quite shifted toward Northern Pashtuns.
    pegasus modeling:
    sample": "Punjabi_Jat:Sapporo_AGUser",
    "fit": 1.1506,
    "IRN_Shahr_I_Sokhta_BA3": 43.33,
    "TKM_Gonur1_BA": 31.67,
    "RUS_Sintashta_MLBA": 25,
    "closestDistances": [

    avatar credit goes out to aaronbee2010

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  13. #7758
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    Quote Originally Posted by Sapporo View Post
    Ran the basic IVC + BMAC + Steppe + excess East Eurasian model on the new Kandahar sample pegasus shared:

    Screen Shot 2020-10-27 at 7.23.17 AM.png


    It's quite shifted toward Northern Pashtuns.
    I assume thats unscaled, his IVC source is akin to what I have seen in the more AASi shifted Baloch ie more Iran_N richer (1456/1466/Gonur2 like), and he needs what I assume would be Achaemenid/Parthian admixture and/or a more ANF enriched BMAC source like Sumbar or Sappali Tepe 2. I avoided using Hasanlu because that in itself is 30% TKM IA like.

    "sample": "Kandahar2",
    "distance": 1.2853,
    "TKM_IA": 41.5,
    "CG_IVCp": 33.5,
    "Sappali_Tepe_BA": 9.5,
    "Hajji_Firuz_C": 8.5,
    "Xiongnu_East_Asian": 7



    "sample": ":Kandahar2",
    "distance": 0.8356,
    "KAZ_Kangju": 49.5,
    "Shahr_I_Sokhta_BA2": 27,
    "Sappali_Tepe2_BA": 16,
    "Xiongnu_East_Asian": 4.5,
    "Shahr_I_Sokhta_BA3": 3
    Last edited by pegasus; 10-27-2020 at 07:15 PM.

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  15. #7759
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    Quote Originally Posted by Ahmed Ali View Post
    One more - my maternal aunt:

    Shazia_scaled,0.061464,-0.006093,-0.113513,0.069122,-0.065243,0.04769,0.00235,0,0.001432,0.00164,-0.002923,0.003597,-0.003419,-0.005643,0.008822,0.00411,-0.007953,-0.003801,-0.005782,-0.011255,0.000374,-0.001484,-0.001602,-0.006025,0.002634

    Shazia,0.0054,-0.0006,-0.0301,0.0214,-0.0212,0.0171,0.001,0,0.0007,0.0009,-0.0018,0.0024,-0.0023,-0.0041,0.0065,0.0031,-0.0061,-0.003,-0.0046,-0.009,0.0003,-0.0012,-0.0013,-0.005,0.0022

    Target: Shazia_scaled
    Distance: 1.7251% / 0.01725128
    49.0 IRN_Shahr_I_Sokhta_BA2
    24.2 TJK_Sarazm_En
    11.4 RUS_Sintashta_MLBA
    10.0 Anatolia_Tepecik_Ciftlik_N
    3.2 Han
    1.4 MAR_Iberomaurusian
    0.8 WHG

    Background: 1/2 Bains Rajput; 1/4 Awan; 1/4 Hazarewal.
    On the PCA , your mom and your Khala plot in the same spot almost, your moms results are more typical just from a quick glance.

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  17. #7760
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    Quote Originally Posted by pegasus View Post
    On the PCA , your mom and your Khala plot in the same spot almost, your moms results are more typical just from a quick glance.
    Thanks Pegasus, that's helpful.

    Does that mean that my Khala's Iran Chl admix is anomalous and not indicative of recent plateau admixture as previously surmised?

    For a minute I thought the coordinates may have been erroneous seeing the G25 differences between my Mom/Khala/Naani haha

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