User: Shicheng Guo

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Shicheng Guo8.4k
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Posts by Shicheng Guo

<prev • 805 results • page 1 of 81 • next >
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EGAD00010001497 vs EGAD00010001474
... Hi All, I notice EBI have two ID for UKB array data. I am wondering what’s the difference between these two dataset? https://www.ebi.ac.uk/ega/datasets/EGAD00010001497 https://www.ebi.ac.uk/ega/datasets/EGAD00010001474 Thanks. ...
egad ukb written 1 day ago by Shicheng Guo8.4k • updated 1 day ago by JC12k
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ICD10, main ICD10 and secondary ICD10
... Hi All, Who can share some experiences what's the difference between these 3 items in UKB. Which one should be used or which one is better to use? ``` 41271 Diagnoses - ICD9 Summary Diagnoses 41203 Diagnoses - main ICD9 Summary Diagnoses 41205 Diagnoses - secondary ICD9 Summary Diagnoses `` ...
icd10 ukb icd9 written 1 day ago by Shicheng Guo8.4k • updated 1 day ago by Garan640
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Comment: C: What software to use to asses phenotypic information from ULBiobank dataset?
... Hi Kevin, do you know how to download the ukbxxx.enc file mentioned by ukbtools? ukb_unpack ukbxxxx.enc key ukb_conv ukbxxxx.enc_ukb r ukb_conv ukbxxxx.enc_ukb docs ...
written 1 day ago by Shicheng Guo8.4k
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Multiple phenotypes based GWAS approach
... Hi All, I have several related phenotypes (~20 and average R2=~0.3) in a GWAS study. I am wondering what's the best approach to perform GWAS to this kinds of study design. I don't want to do GWAS to each phenotype one by one. I think there should be some approach has been developed to consider the ...
gwas multiple phenotype written 16 days ago by Shicheng Guo8.4k
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Comment: C: plink2 bgen to vcf ukbiobank
... I want to add `--minimac3-r2-filter 0.9` into your command. Do you think it will work? ...
written 17 days ago by Shicheng Guo8.4k
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Workshops on Algorithms for Modern Massive Data Sets
... I watched several videos and really enjoyed "Workshops on Algorithms for Modern Massive Data Sets — June 21-24, Berkeley, 2016". However, this workshop has been discontinued for several years. I am wondering is there any similar workshop to talk about Algorithms for Modern Massive Data Sets. Thanks ...
algorithms for modern massive data sets written 17 days ago by Shicheng Guo8.4k
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Comment: C: STRUCTURE VS. ADMIXTURE
... read this one: https://academic.oup.com/bioinformatics/article/22/3/341/220586 ...
written 17 days ago by Shicheng Guo8.4k
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Comment: C: CIBERSORT input file format
... CIBERSORTx used no-negative matrix decomposition or not? ...
written 17 days ago by Shicheng Guo8.4k
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Comment: C: Plink - resolving heterozygous haploid genotypes if an XY chromosome is already
... I am also starting to be interested in GWAS to chrX, chrY and chrM now. ...
written 23 days ago by Shicheng Guo8.4k
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Comment: C: Is GWAS genotype QC to exclude samples with inbreeding coefficient typically app
... autosomes is enough. if you want to use chrX, that's fine ...
written 24 days ago by Shicheng Guo8.4k

Latest awards to Shicheng Guo

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Popular Question 28 days ago, created a question with more than 1,000 views. For Vector NTI in Window 10
Appreciated 5 weeks ago, created a post with more than 5 votes. For A: What is a typical workflow to correlate methylation and expression data?
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Popular Question 8 weeks ago, created a question with more than 1,000 views. For LD plot for both microsatellites and SNP data (Haploview)
Appreciated 9 weeks ago, created a post with more than 5 votes. For A: What is a typical workflow to correlate methylation and expression data?
Commentator 9 weeks ago, created a comment with at least 3 up-votes. For C: Hapmap 3 in hg19/GRCh37 plink format PED and MAP
Popular Question 11 weeks ago, created a question with more than 1,000 views. For Bismark: Minimum MAPQ threshold (MMT) and Minimum Phred threshold (MPT)
Popular Question 11 weeks ago, created a question with more than 1,000 views. For Bismark: Minimum MAPQ threshold (MMT) and Minimum Phred threshold (MPT)
Popular Question 3 months ago, created a question with more than 1,000 views. For Bismark: Minimum MAPQ threshold (MMT) and Minimum Phred threshold (MPT)
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Popular Question 3 months ago, created a question with more than 1,000 views. For Bismark: Minimum MAPQ threshold (MMT) and Minimum Phred threshold (MPT)
Popular Question 4 months ago, created a question with more than 1,000 views. For Bismark: Minimum MAPQ threshold (MMT) and Minimum Phred threshold (MPT)
Scholar 4 months ago, created an answer that has been accepted. For A: significant differential expressed gene validation
Popular Question 4 months ago, created a question with more than 1,000 views. For LD plot for both microsatellites and SNP data (Haploview)
Popular Question 4 months ago, created a question with more than 1,000 views. For Vector NTI in Window 10
Popular Question 4 months ago, created a question with more than 1,000 views. For Bismark: Minimum MAPQ threshold (MMT) and Minimum Phred threshold (MPT)
Appreciated 5 months ago, created a post with more than 5 votes. For A: What is a typical workflow to correlate methylation and expression data?
Great Question 5 months ago, created a question with more than 5,000 views. For trim_galore and cutadapt to paired-end DNA sequencing
Popular Question 5 months ago, created a question with more than 1,000 views. For Vector NTI in Window 10

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