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Questions tagged [population-genetics]

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Confidence intervals around Q-matrix values from multiple STRUCTURE runs

Context: I've run STRUCTURE on a set of 84 individuals (RADseq data) for a range of K values (2--7). I've specified 20 replicate STRUCTURE runs per K value, and these were passed to CLUMPAK to ...
akoontz11's user avatar
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Population Allele Frequency

In UK biobank research environment In GENOMICS tab of UK BRAP, if I type 7:140476600-140480852 coordinate in search bar and the same time after filtering my cohort ...
Zizogolu's user avatar
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Predict population based on PC coordinates

Utilizing a reference panel, I want to assign most likely population label to each individual in the study. Following are the files I have: Reference panel population labels: ...
user2998764's user avatar
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1 answer
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How to open .weir.fst files witout losing data?

I have .vcf file with over 78 000 variations in 95 experiment subjects. I used vcftools to extract fixation index score for general differentiation between Case and Control groups. ...
Lukas Chumchal's user avatar
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2 answers
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Is there any book or reference that explains evolutionary dynamics and fixation probability?

I am a master's student in computational and mathematical biology, with a bachelor's degree in pure mathematics. I am really struggling with my computational biology course, we are supposed to study ...
Mariam Ismail's user avatar
1 vote
1 answer
148 views

How to compute Shanon entropy

I want to analyze some viral sequences. I want to use shanon entropy as a measure to analyze the sequences. However I do not understand the concept of shannon entropy. Would anyone explain please how ...
henrick kola's user avatar
2 votes
1 answer
184 views

How to interpret Mendelian randomization results?

I did Mendelian randomization using this software: https://cran.r-project.org/web/packages/MendelianRandomization/vignettes/Vignette_MR.pdf ...
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