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Luke Hart
Joined: 13 Jul 2015 Posts: 35 Affiliation: University of Manchester

Posted: January 16 2018 


Hello everyone,
So I've spent the last few days trying to work out how to use the code supplied in plc_2.0 (COM_Likelihood_Code...) in the Planck 2015 Likelihood code with the plik data to construct a data covariance matrix. This is including the offdiagonal components due to multipole mixing as well.
Does anyone have any idea where to start? I've been looking at cliklike.F90 in the CosmoMC code (most recent version) as well, but there doesn't seem to be any clear links. I've only seen covariance codes set up for the foreground routines, in the cmb_only component of the code and as I say I don't really understand how to use it.
To be clear: trying to create a covariance matrix between the Cls including binnedls and the mixing between different multipoles.
I've been looking at the clik header files and the computational aspects included in clik_compute but I cannot find the routines where the covariance is calculated??
Please any help would be appreciated :)
Thanks
Luke 

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Graeme Addison
Joined: 17 Jul 2014 Posts: 18 Affiliation: Johns Hopkins University

Posted: February 14 2018 


Not sure this is still useful but the ClCl' covariance can be accessed by reading in the criterion_gauss_mat file that lives in the plik/plik_dx11dr2_HM_v18_TT.clik/clik/lkl_0/ folder. In python you can do this for example by using astropy.io.fits.getdata.
This will give you an array of floats that can be reshaped into a 765x765 covariance matrix  on each side the first 136 entries are the bandpower bins for 100x100 GHz, the next 199 are 143x143, then 215 for 143x217, and finally another 215 for 217x217 GHz.
This matrix has the signal (cosmic variance) and noise contributions included as described in the Planck 2015 likelihood paper. Note that the dependence of the CMB cosmic variance contribution on the actual cosmological parameters is ignored in the Planck likelihood, meaning the covariance matrix is fixed rather than having to be updated as the values of cosmological params change.
EDIT: Oops, sorry, this file contains the *inverse* covariance matrix. 

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Luke Hart
Joined: 13 Jul 2015 Posts: 35 Affiliation: University of Manchester

Posted: March 26 2018 


Thanks Graeme,
Out of interest, how would one marginalise over the nuisance parameters along with this covariance matrix??
Luke 

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Graeme Addison
Joined: 17 Jul 2014 Posts: 18 Affiliation: Johns Hopkins University

Posted: March 26 2018 


What exactly are you trying to do? Planck made a CMBonly spectrum and covariance marginalized over foregrounds and other nuisance parameters that they called 'plik_lite'. Are you after something like that? 

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Luke Hart
Joined: 13 Jul 2015 Posts: 35 Affiliation: University of Manchester

Posted: March 28 2018 


Trying to use the Planck covariance as a starter for a Fisher analysis and also marginalise over nuisance parameters 

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