User: haohanw

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haohanw90
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Posts by haohanw

<prev • 25 results • page 1 of 3 • next >
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Comment: C: Which simulation software do you recommend to generate SNP if I want to study GW
... Thank you for your nice words. Sure, I'm happy to share the codes if you shoot me an email about this. I would always love to help and discuss other related research projects. ...
written 9 days ago by haohanw90
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Comment: C: Which simulation software do you recommend to generate SNP if I want to study GW
... Hi, Thank you for your interest in our work. This is my recent work (https://www.biorxiv.org/content/10.1101/336727v2) that we have put a lot of thoughts on it. I hope you will like it. (Sorry for a delayed reply, I was putting the latest version of the article onto BioXiv after I saw your message s ...
written 10 days ago by haohanw90
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Comment: C: Which simulation software do you recommend to generate SNP if I want to study GW
... Yes, I used SimuPop (http://simupop.sourceforge.net/) eventually. It's a quite powerful python software. I have publications on the method side for the population stratification and association study, not sure if you are interested. ...
written 20 days ago by haohanw90
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Answer: A: where can I find a PLINK formatted toy data to play with?
... This [Precision Lasso repo][1] might be worth looking into. Disclaimer: after searching, I cannot find any good ones, so I made one myself. [1]: https://github.com/HaohanWang/thePrecisionLasso ...
written 2.0 years ago by haohanw90
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where can I find a PLINK formatted toy data to play with?
... I wonder if there are some official PLINK formatted example data that I can use to start to get familiar with PLINK and other tools that use this format. I found two data sets (in the [pylmm][1] repo and [pysnptool][2] repo), but the I am looking for something that is even smaller than the pylmm r ...
data plink written 2.0 years ago by haohanw90 • updated 15 months ago by Biostar ♦♦ 20
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Which simulation software do you recommend to generate SNP if I want to study GWAS, with population structure?
... I want to generate the SNP data, so that I can start to test my statistical model. The primary problem my model works on is the population stratification, so that I hope the simulation can add some population structure into it. In addition, I hope that the underlying population structure could be ...
software gwas snp written 2.3 years ago by haohanw90 • updated 10 days ago by azzaea0
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where can I find the "code table report" for TCGA barcode?
... I need to figure out which cancer the data is corresponding to from barcode, and according to the information [here][1], the second label on the barcode is for the type of cancer. But where can I find the table about how these values are mapped to cancer? The link that website offers is no longer u ...
tcga written 2.4 years ago by haohanw90 • updated 2.4 years ago by dyollluap300
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Comment: C: Does every piece data from GDC(TCGA) has a unique uuid?
... Thanks. I guess the fact that the barcode retrieving website introduced [here][1] is out of service tonight makes it very confusing for me. [1]: https://wiki.nci.nih.gov/display/TCGA/TCGA+Barcode+to+UUID+Web+Service+User%27s+Guide ...
written 2.5 years ago by haohanw90
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Does every piece data from GDC(TCGA) has a unique uuid?
... I downloaded the data (mRNA, miRNA and clinical information) for a group of people from TCGA, but there is not a single overlap in terms of uuid for any sample of these three data sets. So, is there the case that every piece of data has its own uuid? even if these data are for the same person? I ...
tcga rna-seq written 2.5 years ago by haohanw90
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How to write a program to support Plink Binary data format
... Is there possible for me to write my program to support plink binary data format? So far, several libraries support this function, but they are either in C++ or Python. I need a Javascript version, and I couldn't find such an implementation anywhere. Then I tried to implement my javascript libra ...
bed plink written 2.8 years ago by haohanw90 • updated 2.8 years ago by chrchang5235.4k

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