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Thread: 0 penalty removes BMAC from nmonte runs in G25 ancients run among SouthAsians

  1. #1
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    0 penalty removes BMAC from nmonte runs in G25 ancients run among SouthAsians

    When I changed penalty from 0.001 to 0.0000002 or 0, the BMAC ancestry (gonur 1 & 2 ) are being replaced with BEAKERS. ATleast half of that is being moved to IVC. Is that the pattern all across South Asian ? Does it indicates BMAC ancestry is part IVC & part Beaker



    eg.
    penalty 0.001
    "distance%=4.3607"

    JD1_anon_scaled

    INDUS-VALLEY-CIVILIZATION,69.75
    BACTRIA-MARGIANA,15
    STEPPE-EAST,4.25
    HUNS,3.25
    URAL-SIBERIA,3.25
    BEAKERS-CENTRAL-EUROPEAN,1.25
    BRITAIN-CA-EBA,0.75
    STEPPE-WEST,0.75
    STEPPE,0.5
    BEAKERS-BRITAIN,0.25
    CENTRAL-ASIA,0.25
    CORDED-WARE-BALTIC,0.25
    CORDED-WARE-SWEDEN,0.25
    IBEROMAURUSIAN,0.25


    penalty 0

    JD1_anon_scaled

    INDUS-VALLEY-CIVILIZATION,74.75
    BEAKERS-CENTRAL-EUROPEAN,12.5
    HUNS,5
    STEPPE,4.75
    CORDED-WARE-BALTIC,1.25
    IBEROMAURUSIAN,1
    STEPPE-EAST,0.75


    penalty=0
    "distance%=2.305"

    Custom--AGUser_parasar

    INDUS-VALLEY-CIVILIZATION,66.5
    BEAKERS-CENTRAL-EUROPEAN,15.75
    STEPPE,10.5
    BACTRIA-MARGIANA,2.75
    LEVANT,2.75
    HUNS,1.75

    penalty =.001

    "distance%=3.8582"

    Custom--AGUser_parasar

    INDUS-VALLEY-CIVILIZATION,55.75
    BACTRIA-MARGIANA,23.25
    BEAKERS-CENTRAL-EUROPEAN,3.75
    URAL-SIBERIA,3.5
    BEAKERS-BRITAIN,3
    STEPPE-EST,3
    CZECH-EBA,1.75
    BRITAIN-CA-EBA,1
    HUNS,1
    STEPPE,1
    CORDED-WARE.CZECH,0.75

    pen=0.001
    "distance%=3.628"

    Kush

    INDUS-VALLEY-CIVILIZATION,88
    BACTRIA-MARGIANA,10.25
    HUNS,1
    BEAKERS-CENTRAL-EUROPEAN,0.25
    BRITAIN-CA-EBA,0.25
    STEPPE-EST,0.25

    penalty=0
    "distance%=2.8286"

    Kush

    INDUS-VALLEY-CIVILIZATION,91.25
    NO-STEPPE-CENTRAL-EUROPEANS,3.75
    BEAKERS-IBERIA-ITALY,2.75
    LEVANT,1
    HUNS,0.75
    BACTRIA-MARGIANA,0.5


    0.001
    "distance%=4.8379"

    Kshatriya:199e

    INDUS-VALLEY-CIVILIZATION,65.75
    BACTRIA-MARGIANA,21
    STEPPE-EST,3.5
    URAL-SIBERIA,2.25
    BEAKERS-CENTRAL-EUROPEAN,1.5
    BRITAIN-CA-EBA,1.25
    HUNS,1.25
    BEAKERS-BRITAIN,1
    BEAKERS-NETHERLANDS,0.75

    pen=0
    "distance%=2.4977"

    Kshatriya:199e

    INDUS-VALLEY-CIVILIZATION,75
    BEAKERS-CENTRAL-EUROPEAN,6.25
    STEPPE-WEST,5.75
    BEAKERS-BRITAIN,5
    CORDED-WARE-GERMANY,4.75
    BRITAIN-CA-EBA,1.25
    STEPPE-EST,1
    CORDED-WARE-BALTIC,0.5
    HUNS,0.5


    [1] "penalty= 0.001"
    [1] "Ncycles= 900"

    "distance%=2.8086"

    Suresh_T_scaled

    INDUS-VALLEY-CIVILIZATION,86
    BACTRIA-MARGIANA,11.25
    HUNS,2
    IBEROMAURUSIAN,0.25
    TUNGUS,0.25
    URAL-SIBERIA,0.25

    [1] "penalty= 0"
    [1] "Ncycles= 900"

    "distance%=2.0598"

    Suresh_T_scaled

    INDUS-VALLEY-CIVILIZATION,91
    NO-STEPPE-CENTRAL-EUROPEANS,3.25
    HUNS,1.75
    BEAKERS-CENTRAL-EUROPEAN,1.5
    LEVANT,1
    BACTRIA-MARGIANA,0.75
    BEAKERS-IBERIA-ITALY,0.75



    In case of Khana whose primary is showing BMAC came down >20%

    pen=0.001

    "distance%=2.4511"

    Khana

    BACTRIA-MARGIANA,57
    INDUS-VALLEY-CIVILIZATION,23.75
    STEPPE-EST,4
    BEAKERS-CENTRAL-EUROPEAN,3.25
    URAL-SIBERIA,3
    HUNS,2.25
    BEAKERS-BRITAIN,1
    BRITAIN-CA-EBA,1
    TUNGUS,1
    CENTRAL-ASIA,0.75
    LEVANT,0.75
    STEPPE,0.75
    CORDED-WARE-GERMANY,0.5
    STEPPE-WEST,0.5
    BEAKERS-IBERIA-ITALY,0.25
    CZECH-EBA,0.25


    pen=0
    "distance%=0.9891"

    Khana

    BACTRIA-MARGIANA,38.25
    INDUS-VALLEY-CIVILIZATION,37.5
    BEAKERS-CENTRAL-EUROPEAN,12
    STEPPE,4.25
    TUNGUS,3.25
    BEAKERS-NETHERLANDS,2.25
    URAL-SIBERIA,2
    HUNS,0.5
    Y: H1a1a4b3b1a8 Yfull id-> YF83218
    Medals->Hidden Content
    mtDNA:U2a1a2
    G25 Ancients Dist 1.0 IRN_Shahr_I_Sokhta_BA2 88.4 MAR_Taforalt 2.6NPL_Mebrak 5
    VK2020_SWE_Gotland_VA 4 Hidden Content

    Lactose Persistence rs3213871 rs4988243 rs4988183 rs3769005 rs2236783
    found -> DA125, Kangju

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  3. #2
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    Where is the spreadsheet for this?

  4. #3
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    Quote Originally Posted by Censored View Post
    Where is the spreadsheet for this?

    https://docs.google.com/spreadsheets...it?usp=sharing
    Y: H1a1a4b3b1a8 Yfull id-> YF83218
    Medals->Hidden Content
    mtDNA:U2a1a2
    G25 Ancients Dist 1.0 IRN_Shahr_I_Sokhta_BA2 88.4 MAR_Taforalt 2.6NPL_Mebrak 5
    VK2020_SWE_Gotland_VA 4 Hidden Content

    Lactose Persistence rs3213871 rs4988243 rs4988183 rs3769005 rs2236783
    found -> DA125, Kangju

  5. #4
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    Oh, I am referring to the spreadsheet with the coordinates of the ancients.

  6. #5
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    Quote Originally Posted by Censored View Post
    Oh, I am referring to the spreadsheet with the coordinates of the ancients.
    This is the sheet I am using for the Scaled versions from ph2per

    https://docs.google.com/document/d/1...it?usp=sharing
    Y: H1a1a4b3b1a8 Yfull id-> YF83218
    Medals->Hidden Content
    mtDNA:U2a1a2
    G25 Ancients Dist 1.0 IRN_Shahr_I_Sokhta_BA2 88.4 MAR_Taforalt 2.6NPL_Mebrak 5
    VK2020_SWE_Gotland_VA 4 Hidden Content

    Lactose Persistence rs3213871 rs4988243 rs4988183 rs3769005 rs2236783
    found -> DA125, Kangju

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    Tipirneni turned my attention to this thread.
    I think that before any conclusion, additional Asian references should be added to the spreadsheet (Burmese and Onge).

    For now it looks that BACTRIA-MARGIANA do not harbour any Steppe:

    From my Chalcolithic Steppe calc:

    [1] "distance%=1.1591"


    Gonur1_BA


    CENTRAL-ASIA,45
    TURAN,41.6
    ARMENIA,7
    INDUS-VALLEY-CIVILIZATION,4.2
    SIBERIA,1.6
    BOTAI,0.6


    [1] "distance%=3.78"


    BACTRIA-MARGIANA_Parkhai_MBA_I6674


    TURAN,67
    CENTRAL-ASIA,33

    [1] "distance%=2.0515"


    BACTRIA-MARGIANA:Sappali_Tepe_BA_I7494


    TURAN,74
    LEVANT,19
    INDUS-VALLEY-CIVILIZATION,4.8
    WEST-IRAN,1
    IBEROMAURUSIAN,0.6
    TUNGUS,0.6

    [1] "distance%=2.3418"


    BACTRIA-MARGIANA:Sappali_Tepe_BA_I7414


    CENTRAL-ASIA,47.6
    TURAN,35.4
    INDUS-VALLEY-CIVILIZATION,12.2
    WEST-IRAN,2
    EUROPEAN-FARMERS,1.2
    IBEROMAURUSIAN,1.2
    EUROPEAN-HUNTERS,0.4





    Central Asia in this calc is Namazga_Eneolithic and Parkhai EBA, Turan is Tepe_Hissar_Chalcolithic.
     
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  9. #7
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    Quote Originally Posted by ph2ter View Post
    Tipirneni turned my attention to this thread.
    I think that before any conclusion, additional Asian references should be added to the spreadsheet (Burmese and Onge).

    For now it looks that BACTRIA-MARGIANA do not harbour any Steppe:

    From my Chalcolithic Steppe calc:

    [1] "distance%=1.1591"


    Gonur1_BA


    CENTRAL-ASIA,45
    TURAN,41.6
    ARMENIA,7
    INDUS-VALLEY-CIVILIZATION,4.2
    SIBERIA,1.6
    BOTAI,0.6


    [1] "distance%=3.78"


    BACTRIA-MARGIANA_Parkhai_MBA_I6674


    TURAN,67
    CENTRAL-ASIA,33

    [1] "distance%=2.0515"


    BACTRIA-MARGIANA:Sappali_Tepe_BA_I7494


    TURAN,74
    LEVANT,19
    INDUS-VALLEY-CIVILIZATION,4.8
    WEST-IRAN,1
    IBEROMAURUSIAN,0.6
    TUNGUS,0.6

    [1] "distance%=2.3418"


    BACTRIA-MARGIANA:Sappali_Tepe_BA_I7414


    CENTRAL-ASIA,47.6
    TURAN,35.4
    INDUS-VALLEY-CIVILIZATION,12.2
    WEST-IRAN,2
    EUROPEAN-FARMERS,1.2
    IBEROMAURUSIAN,1.2
    EUROPEAN-HUNTERS,0.4





    Central Asia in this calc is Namazga_Eneolithic and Parkhai EBA, Turan is Tepe_Hissar_Chalcolithic.
    I suggest you add the Irula or Paniya samples into the spreadsheet. I did that and got better results. Initially my Bmac was being hidden as it was eaten up by IVC.

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    Quote Originally Posted by Censored View Post
    I suggest you add the Irula or Paniya samples into the spreadsheet. I did that and got better results. Initially my Bmac was being hidden as it was eaten up by IVC.
    They really improve the calc:

    pen=0

    [1] "distance%=0.6319"


    Pashtun


    BACTRIA-MARGIANA,38.6
    STEPPE-WEST,22
    INDUS-VALLEY-CIVILIZATION,18.4
    Irula,11.6
    HUNS,3.4
    BEAKERS-CENTRAL-EUROPEAN,3
    CORDED-WARE-GERMANY,1.4
    BRITAIN-CA-EBA,0.6
    CORDED-WARE-BALTIC,0.6
    LEVANT,0.4


    [1] "distance%=2.3148"


    Brahmin_Uttar_Pradesh


    INDUS-VALLEY-CIVILIZATION,76.8
    BRITAIN-CA-EBA,13.6
    CORDED-WARE-GERMANY,9.6

    [1] "distance%=2.0067"


    Varun_scaled


    INDUS-VALLEY-CIVILIZATION,51
    Irula,18.6
    BRITAIN-CA-EBA,17.2
    BACTRIA-MARGIANA,12.2
    BEAKERS-IBERIA-ITALY,1


    [1] "distance%=2.177"


    Jortita_scaled


    Irula,52.8
    HUNS,20.4
    BACTRIA-MARGIANA,18
    STEPPE-WEST,6.4
    STEPPE,2.4

    [1] "distance%=2.0902"


    Parasar_scaled


    INDUS-VALLEY-CIVILIZATION,33.8
    Irula,25.2
    BACTRIA-MARGIANA,13.8
    BEAKERS-CENTRAL-EUROPEAN,13
    STEPPE,10.6
    STEPPE-WEST,2.6
    LEVANT,1






    [1] "distance%=2.1935"


    Bmoney_scaled


    INDUS-VALLEY-CIVILIZATION,64.4
    Irula,11.6
    BACTRIA-MARGIANA,10
    BEAKERS-CENTRAL-EUROPEAN,5
    BRITAIN-CA-EBA,4.8
    STEPPE-WEST,3
    IBEROMAURUSIAN,1.2


    Steppe West, the Beakers, Britain CA-EBA and Corded Ware really are indistinguishable.
     
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    Quote Originally Posted by ph2ter View Post
    They really improve the calc:

    pen=0

    [1] "distance%=0.6319"


    Pashtun


    BACTRIA-MARGIANA,38.6
    STEPPE-WEST,22
    INDUS-VALLEY-CIVILIZATION,18.4
    Irula,11.6
    HUNS,3.4
    BEAKERS-CENTRAL-EUROPEAN,3
    CORDED-WARE-GERMANY,1.4
    BRITAIN-CA-EBA,0.6
    CORDED-WARE-BALTIC,0.6
    LEVANT,0.4


    [1] "distance%=2.3148"


    Brahmin_Uttar_Pradesh


    INDUS-VALLEY-CIVILIZATION,76.8
    BRITAIN-CA-EBA,13.6
    CORDED-WARE-GERMANY,9.6

    [1] "distance%=2.0067"


    Varun_scaled


    INDUS-VALLEY-CIVILIZATION,51
    Irula,18.6
    BRITAIN-CA-EBA,17.2
    BACTRIA-MARGIANA,12.2
    BEAKERS-IBERIA-ITALY,1


    [1] "distance%=2.177"


    Jortita_scaled


    Irula,52.8
    HUNS,20.4
    BACTRIA-MARGIANA,18
    STEPPE-WEST,6.4
    STEPPE,2.4

    [1] "distance%=2.0902"


    Parasar_scaled


    INDUS-VALLEY-CIVILIZATION,33.8
    Irula,25.2
    BACTRIA-MARGIANA,13.8
    BEAKERS-CENTRAL-EUROPEAN,13
    STEPPE,10.6
    STEPPE-WEST,2.6
    LEVANT,1






    [1] "distance%=2.1935"


    Bmoney_scaled


    INDUS-VALLEY-CIVILIZATION,64.4
    Irula,11.6
    BACTRIA-MARGIANA,10
    BEAKERS-CENTRAL-EUROPEAN,5
    BRITAIN-CA-EBA,4.8
    STEPPE-WEST,3
    IBEROMAURUSIAN,1.2


    Steppe West, the Beakers, Britain CA-EBA and Corded Ware really are indistinguishable.
    Did you use the Irula average or all individuals? Those results are a bit different from what I got but it doesn’t really matter. I would also add an East Asian proxy-an ancient like Tianyuan or modern like Naxi as well. Jortita should get some.

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    Quote Originally Posted by Censored View Post
    Did you use the Irula average or all individuals? Those results are a bit different from what I got but it doesn’t really matter. I would also add an East Asian proxy-an ancient like Tianyuan or modern like Naxi as well. Jortita should get some.
    With modern East Asian references, Huns disappear:

    [1] "distance%=1.6189"


    Jortita_scaled


    Irula,38.6
    Naxi,17.2
    INDUS-VALLEY-CIVILIZATION,16.6
    BACTRIA-MARGIANA,14.2
    STEPPE-WEST,10
    STEPPE,3.2
    BEAKERS-CENTRAL-EUROPEAN,0.2


    [1] "distance%=2.1107"


    Reza_A


    INDUS-VALLEY-CIVILIZATION,38.8
    Irula,28
    Naxi,11
    Paniya,6.4
    STEPPE,5.2
    BACTRIA-MARGIANA,5
    BRITAIN-CA-EBA,4
    CORDED-WARE-BALTIC,1.4
    URAL-SIBERIA,0.2

    I used the average for Irula, but maybe my version was not identical to the published spreadsheet.

    And Pashtun:

    [1] "distance%=0.5816"


    Pashtun


    BACTRIA-MARGIANA,37.6
    STEPPE-WEST,23.6
    INDUS-VALLEY-CIVILIZATION,20.8
    Irula,9.4
    Naxi,2.8
    BEAKERS-CENTRAL-EUROPEAN,2
    CORDED-WARE-GERMANY,1
    CZECH-EBA,1
    LEVANT,0.8
    CORDED-WARE-BALTIC,0.6
    MINOAN,0.4
    Last edited by ph2ter; 12-20-2018 at 09:26 AM.
     
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