User: wang.yiguan

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wang.yiguan10
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Posts by wang.yiguan

<prev • 7 results • page 1 of 1 • next >
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How to test the distribution of (site frequency spectrum) SFS?
... I have the SFS of synonymous sties and non-synonymous sites. It seems more non-synonymous sites are located at low frequency spectrum, which might indicate purifying selection. But how can I test the difference of the two distributions. I noticed some papers using Mann-Whitney U Test. But I am ques ...
R snp written 3 months ago by wang.yiguan10
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(Closed) How to parallel task in bash elegantly?
... Are there any elegant way to parallel processing in bash? Something like R packages "parallel" or Python module "multiprocessing"! Thanks! ...
parallel bash written 3 months ago by wang.yiguan10 • updated 3 months ago by WouterDeCoster30k
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Can I determine ancestral allele based on phylogenetic tree?
... Hi, I have the whole genome of 5 species(S1-S5), and I have constructed the phylogenetic tree of the five species as following. And I now also know the sequences of 4 nodes on the tree(N1-N4) using FastML tool. My question is: How can I determine the ancestral alleles for S1? Is N4 sequence the a ...
genome gene alignment written 3 months ago by wang.yiguan10 • updated 3 months ago by h.mon16k
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Comment: C: Does anyone know the genome alignment format like this?
... Thanks for providing me these info. I found some documents about the format: https://groups.google.com/a/soe.ucsc.edu/forum/#!topic/genome/m5eTOXbkiec http://genome.ucsc.edu/goldenPath/help/chain.html ...
written 4 months ago by wang.yiguan10
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Does anyone know the genome alignment format like this?
... I have the whole genome alignment results from two species, but I am confused about the results format. Does anyone know the format, and can you make an explanation? Thank you very much! ##matrix=axtChain 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91 ##gapPenaltie ...
genome assembly alignment sequencing written 4 months ago by wang.yiguan10 • updated 4 months ago by h.mon16k
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Comment: C: reference genome alignment
... Thanks for your suggestion. I am new to bioinformatics, and the paper does help me a lot in understanding these tools! I am now trying MUMmer, and it seems work for me. ...
written 10 months ago by wang.yiguan10
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reference genome alignment
... Hi, I have a new reference genome. And I intend to align it to reference genome of other related species, so as to determine the ancestral state for our reference genome. It's like genome alignment to genome. which tools can be used to achieve this? Thanks very much. ...
genome alignment written 10 months ago by wang.yiguan10 • updated 4 months ago by madzayasodara0

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