Starting with correlation matrices?

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This topic contains 2 replies, has 3 voices, and was last updated by  Jeff 4 days, 9 hours ago.

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  • #21701 Reply

    johnsojp
    Participant

    Hi all,

    BRAPH seems like a great toolbox–very straightforward and intuitive, but I have a question about setting up my cohort.
    Is it possible to set up an fmri cohort by entering correlation matrices for each subject instead of their ROI timeseries data? And if so, would BRAPH accept Fisher Z-transformed coefficients (some of which could be greater than 1) or would it be best to enter non-transformed r values?

    Thank you!

    Jeff

    #21761 Reply

    Mite Mijalkov
    Keymaster

    Hi Jeff,

    Thank you for your interest in Braph. Hopefully, you will find the software useful for your research.

    Currently, Braph does not allow for direct input of the connectivity matrices. However, you could modify few lines of the code in order to be able to input the connectivity values instead of time series. We discussed this problem previously on this forum, and I provided a series of steps that accomplish your purpose. You can find the detailed explanation at: http://braph.org/forums/topic/eeg-graph-analysis/ .

    With regard to your second question, Braph will accept Fisher Z-transformed coefficients and the fact that some can be greater than 1 will not pose any problem. After you have performed the steps detailed above and inputted your matrices, then you can use the other functionalities of the software without any problem.

    I hope that you find this helpful. If you have any other questions, for this topic or anything else, please do not hesitate to contact me and I will do my best to try and help you.

    Best,
    Mite

    #21858 Reply

    Jeff

    Hi Mite,
    Thank you for your response. Your solution worked great–I’m now able to directly enter correlation matrices.

    I do have another question for you though: is it possible to use a density- (or significance-) based threshold but retain the weights of all edges that remain after thresholding?

    Thank you again for your help.

    Best,
    Jeff

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