User: Shicheng Guo

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Shicheng Guo7.1k
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Posts by Shicheng Guo

<prev • 508 results • page 1 of 51 • next >
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Answer: A: Relatedness software for 20,000 exome sequencing datasets.
... Only select tag-SNPs and run the relatedness2, the less SNPs you use, the faster it is. ...
written 1 day ago by Shicheng Guo7.1k
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Answer: A: Simulate genotypes based on reference genotypes with same LD structure?
... Simple bi-allelic SNPs without structure: `PLINK` Coalescent approaches: `GENOME` Forward-time approaches: `MetaSim` and `simuPop` Resampling approaches: `Hapgen2` ...
written 1 day ago by Shicheng Guo7.1k
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Answer: A: simulate genotypes for SNPs, considering MAF and LD structure
... Simple bi-allelic SNPs without structure: `PLINK` Coalescent approaches: `GENOME` Forward-time approaches: `MetaSim` and `simuPop` Resampling approaches: `Hapgen2` ...
written 1 day ago by Shicheng Guo7.1k
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Answer: A: How to fix this strand flips for Michigan Imputation Server?
... Check the strand and switching just like before to use beagle: http://faculty.washington.edu/sguy/beagle/strand_switching/strand_switching.html or try this simple tool: https://github.com/biocore-ntnu/snpflip beagle also provide a tool called `conform-gt` https://faculty.washington.edu/browning/ ...
written 1 day ago by Shicheng Guo7.1k
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Comment: C: Heritability Atlas Based on Twins Study
... Great. Thanks again!! ...
written 3 days ago by Shicheng Guo7.1k
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Comment: C: Heritability Atlas Based on Twins Study
... It is SNP-heritability, why they don't have twin based heritability. They have have such data, right? ...
written 4 days ago by Shicheng Guo7.1k
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Comment: C: How to determine the surface markers in a gene list
... Nice. Maybe we can thinking about to based a algorithm to weight them and give a prediction ...
written 4 days ago by Shicheng Guo7.1k
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Comment: C: How to determine the surface markers in a gene list
... Great question. Waiting for correct answers ...
written 5 days ago by Shicheng Guo7.1k
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Answer: A: compare and merge VCF files
... Suppose you have `chr22.chip` and `chr22.imputation` to be merged. you can try the following way: plink --bfile chr22.chip --list-duplicate-vars awk '{print $4}' plink.dupvar | grep -v ID > plink.dupvar.id plink --bfile chr22.chip --exclude plink.dupvar.id --make-bed --out chr22.c ...
written 6 days ago by Shicheng Guo7.1k
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Answer: A: Heritability Database
... Heritability of >2,000 traits & disorders in UK Biobank https://nealelab.github.io/UKBB_ldsc/ ...
written 6 days ago by Shicheng Guo7.1k

Latest awards to Shicheng Guo

Great Question 1 day ago, created a question with more than 5,000 views. For fastq-dump split-spot and skip-technical
Scholar 1 day ago, created an answer that has been accepted. For A: significant differential expressed gene validation
Popular Question 6 days ago, created a question with more than 1,000 views. For Vector NTI in Window 10
Teacher 18 days ago, created an answer with at least 3 up-votes. For A: error in running R
Student 21 days ago, asked a question with at least 3 up-votes. For Public data access: Single-cell RNA-seq and Buck RNA-seq data
Popular Question 4 weeks ago, created a question with more than 1,000 views. For Vector NTI in Window 10
Popular Question 4 weeks ago, created a question with more than 1,000 views. For Vector NTI in Window 10
Student 4 weeks ago, asked a question with at least 3 up-votes. For Public data access: Single-cell RNA-seq and Buck RNA-seq data
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: error in running R
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?
Popular Question 5 weeks ago, created a question with more than 1,000 views. For Vector NTI in Window 10
Appreciated 7 weeks ago, created a post with more than 5 votes. For A: What is a typical workflow to correlate methylation and expression data?
Student 7 weeks ago, asked a question with at least 3 up-votes. For Public data access: Single-cell RNA-seq and Buck RNA-seq data
Appreciated 7 weeks ago, created a post with more than 5 votes. For A: Bioinformatic Algorithms Books
Appreciated 7 weeks ago, created a post with more than 5 votes. For A: What is a typical workflow to correlate methylation and expression data?
Student 7 weeks ago, asked a question with at least 3 up-votes. For Average Methylation Level for a Genomic Region from Bam File (PileOMeth )
Student 7 weeks ago, asked a question with at least 3 up-votes. For Fastqc to BS-seq dataset (Methylation-seq quality control)
Student 7 weeks ago, asked a question with at least 3 up-votes. For Converting Phred64 fastq to Phred33 fastq
Popular Question 7 weeks ago, created a question with more than 1,000 views. For Bad Exprience on bigwig Format Visualization in UCSC
Appreciated 7 weeks ago, created a post with more than 5 votes. For A: What is a typical workflow to correlate methylation and expression data?
Appreciated 11 weeks ago, created a post with more than 5 votes. For A: What is a typical workflow to correlate methylation and expression data?
Popular Question 11 weeks ago, created a question with more than 1,000 views. For Bad Exprience on bigwig Format Visualization in UCSC
Appreciated 11 weeks ago, created a post with more than 5 votes. For A: Bioinformatic Algorithms Books
Student 11 weeks ago, asked a question with at least 3 up-votes. For Public data access: Single-cell RNA-seq and Buck RNA-seq data
Teacher 11 weeks ago, created an answer with at least 3 up-votes. For A: error in running R

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