User: xinhui.wang

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xinhui.wang140
Reputation:
140
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Trusted
Location:
Netherlands
Last seen:
1 year, 2 months ago
Joined:
5 years, 3 months ago
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x**********@gmail.com

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Posts by xinhui.wang

<prev • 32 results • page 1 of 4 • next >
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Quality check for illumina GSA data
... Dear all, I have many illumina GSA (iscan) data, I would like to check is these any sample contaminated? Is there some tool in linux could do in command line? Thanks and with best regards, Xinhui ...
illumina snps written 15 months ago by xinhui.wang140 • updated 14 months ago by Biostar ♦♦ 20
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How to generate genetics risk score with linkage disequilibrium?
... Dear all, I am working on genetics risk score generation with many SNPs on certein diseases. Our previousl algorithm is based on weight GRS, however, without considering linkage disequilibrium. I would like to check the linkage disequilibrium between these SNPs and calculate the GRS with consideri ...
snps linkage disequilibrium genetics risk score written 15 months ago by xinhui.wang140 • updated 15 months ago by Denise - Open Targets4.6k
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genetic risk score generation with LD
... Dear all, I am trying to generate genetics risk score with about 20 SNPs, however, I tried to combine LD structure (or Block) to generate more precise results. Is there any methods and tools could to do this work? Thanks and with best regards, Xinhui ...
gene R snp written 17 months ago by xinhui.wang140
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genetics risk score calculation
... Dear all, I am calculate the total genetic risk score with 420 SNP's. I planed to apply weight method. Unfortunately, there are OR missing for several SNPs? Normally, how to deal with these OR missing SNPs. If I would like include diseases parameters, is there a efficient tool to calculate the ri ...
gene written 21 months ago by xinhui.wang140
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Comment: C: risk value with genetic data
... sorry. I mean that I have a group of risk SNPs. For each sample, we have some SNPs with mutation type, then how to calculate the total contribution of these SNPs. For example, give a risk values. ...
written 21 months ago by xinhui.wang140
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Comment: C: BWA and GATK pipeline
... sorry. I mean assembly pipeline and SNP calling pipeline. BWA to do assembly and GATK to do SNP calling. ...
written 21 months ago by xinhui.wang140
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risk value with genetic data
... Dear all, I am working on diagnositc work. I check the expression of may SNPs and would like to give a risk value from these snps and other clinical parameters. I am wondering is there a specefic tool or algorithms for this aim? Thanks and with best regards, Xinhui ...
snp written 21 months ago by xinhui.wang140
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BWA and GATK pipeline
... Dear all, I am working on the raw sequencing data from X10.Is there stand pipeline of assembly and alignment to do this work. I prefer to start with BWA then GATK to do the SNP calling. Thanks and with best regards, Xinhui ...
assembly next-gen alignment written 21 months ago by xinhui.wang140
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Comment: C: bsctools merge on duplicate samples
... thanks. It worked! ...
written 3.1 years ago by xinhui.wang140
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bsctools merge on duplicate samples
... Dear all, I try to merge seveal vcfs (each one for one chr, and with same samples) into one vcf file. However, when I run bcftools merge -l file_list.txt --force-samples -o  all.vcf here file_list is a list of vcf file I try to merge with. I got a all.vcf file with sample names as 2428822 25438 ...
snp written 3.1 years ago by xinhui.wang140 • updated 10 months ago by Biostar ♦♦ 20

Latest awards to xinhui.wang

Appreciated 21 months ago, created a post with more than 5 votes. For A: how to extract sample id with bcftools or vcftools
Good Answer 21 months ago, created an answer that was upvoted at least 5 times. For A: how to extract sample id with bcftools or vcftools
Popular Question 3.1 years ago, created a question with more than 1,000 views. For Snp'S On Exome Sequencing?
Popular Question 3.1 years ago, created a question with more than 1,000 views. For how to extract sample id with bcftools or vcftools
Popular Question 3.1 years ago, created a question with more than 1,000 views. For how to remove multiallelic from VCF
Teacher 3.1 years ago, created an answer with at least 3 up-votes. For A: how to extract sample id with bcftools or vcftools

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