User: victorv888

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victorv8880
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Posts by victorv888

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How to calculate population size (Ne) from y-axis of Bayesian Coalescent Skyline Plot
... Dear all, I'm relatively new to Beast. I have run a Bayesian Skyline Analysis with a large dataset and I would like to calculate the population size (Ne). As I have read, when using substitution rates for calibration, the y-axis is a product of Ne*tau (generations time). If I have a generation time ...
beast bayesian skyline population size written 9 weeks ago by victorv8880
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How to define tax priors properly to calculate MRCAs with Beast2
... I wonder if somebody can clarify me if for calculating a MRCA between two groups (for example, humans and chimps), I have to pass in the prior all my chimps and human samples to the right, or on the contrary, if I have to separate them (only pass one of them). A rapid answer would be really apprecia ...
beast2 mrca written 11 weeks ago by victorv8880
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Comment: C: Random downsampling without replacement in bam files only in regions with covera
... So the objetive of my "cherry-picking (lol?)" I that I'm using a genome assembly pipeline that does 20 random subsamplings to down the coverage to 150x in every subsampling and then do the consensus to reconstruct the genome. The problem is that I have some samples where coverage is so huge in some ...
written 5 months ago by victorv8880
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Random downsampling without replacement in bam files only in regions with coverage>x
... So I have a bam file with a huge coverage in some regions and I want to subsample randomly only reads that cover that zones, without sampling reads that cover zones of low coverages. Is there any tool or something? Thanks! ...
reads bam coverage written 5 months ago by victorv8880

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