8000 Identify significantly exclusive mutations using MCMC procedure · Issue #35 · raphael-group/wext · GitHub
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merckey opened this issue Feb 26, 2020 · 0 comments
Open

Identify significantly exclusive mutations using MCMC procedure #35

merckey opened this issue Feb 26, 2020 · 0 comments

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@merckey
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merckey commented Feb 26, 2020

Dear wext authors,
I have successively perfromed WRE test on my dataset with find_exclusive_sets.py using the MCMC procedure for larger gene set size (sample code below).

        "python find_exclusive_sets.py "
        "-s MCMC "
        "-mf mutation "
        "-c 5 "
        "-k 4 "
        "-f 5 "
        "-N 1000 "
        "-nc 4 "
        "-o output/WRE-saddlepoint-nw1000 --json_format "
        "WRE -m Saddlepoint -wf weights"

However, I didn't find the information for summarizing the MCMC results to identify significantly exclusive mutations from the raw json results. Could you point me to the right direction?
Thank you so much!
Jin
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