User: Sharon

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Sharon490
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490
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1 month, 3 weeks ago
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3 years, 3 months ago
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Posts by Sharon

<prev • 222 results • page 1 of 23 • next >
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Comment: C: Get Germline variants from Biomart
... Thanks RamRS, done :) ...
written 3 months ago by Sharon490
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Comment: C: Get Germline variants from Biomart
... I am using linux, and vim. :) Thanks genomax ...
written 3 months ago by Sharon490
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Answer: A: Get Germline variants from Biomart
... Hi everyone In case anyone else stuck at this like me, this works: SNPs <- getBM(attributes=c('ensembl_gene_id', 'germ_line_variation_source'),filters = 'germ_line_variation_source',values='SGRP', mart = mygenome) Thanks ...
written 3 months ago by Sharon490
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Get Germline variants from Biomart
... Hi Everyone I am trying to get all genes that has gremlin variant from biomart using code: SNPs <- getBM(attributes=c('ensembl_gene_id'), filters = 'germ_line_variation_source',values='with_validated_snp', mart = mygenome) SNPs <- getBM(attributes=c('ensembl_gene_id'), filters = ...
getbm filter written 3 months ago by Sharon490
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Comment: C: GT 2/3, or 3/3 or 2/2 in vcf
... Hi Tania I think I understand your question. I think you assume that the reference is the first entry and this confuses you that you assume GT should be 0/1 or 1/1 or 1/2 or 1/3 etc like the first one is usually 0 or 1? Right? Because I was there too :) These are indeces so in Devon answer 0 is ...
written 5 months ago by Sharon490
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Comment: C: How to fix this strand flips for Michigan Imputation Server?
... Hello, I used Beagle instead of Michigan Imputation Server and it works with me. ...
written 17 months ago by Sharon490
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Comment: C: Relatedness vs relatedness2 from vcftools give different results
... Great, thank you :) ...
written 18 months ago by Sharon490
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Comment: C: Annovar for mouse buildver and downdb?
... Yes, I realised that also. Thanks Kevin :) ...
written 18 months ago by Sharon490
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Comment: C: How to fix this strand flips for Michigan Imputation Server?
... I used Beagle it self and it works with me with no issues like the server. ...
written 22 months ago by Sharon490
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Comment: C: How to fix this strand flips for Michigan Imputation Server?
... Still trying anamaria. I will post my answer here if it works out. ...
written 23 months ago by Sharon490

Latest awards to Sharon

Popular Question 3 months ago, created a question with more than 1,000 views. For edgeR error related to tximport
Scholar 3 months ago, created an answer that has been accepted. For A: Help in tximport
Popular Question 5 months ago, created a question with more than 1,000 views. For edgeR error related to tximport
Popular Question 5 months ago, created a question with more than 1,000 views. For edgeR error related to tximport
Popular Question 10 months ago, created a question with more than 1,000 views. For How can I convert from bed to bed12 format?
Popular Question 10 months ago, created a question with more than 1,000 views. For Alignment dropped with Salmon
Popular Question 10 months ago, created a question with more than 1,000 views. For Relatedness vs relatedness2 from vcftools give different results
Popular Question 10 months ago, created a question with more than 1,000 views. For Is this variant probably an artifact?
Popular Question 10 months ago, created a question with more than 1,000 views. For edgeR error related to tximport
Popular Question 10 months ago, created a question with more than 1,000 views. For Insert size different from company with BBMap
Popular Question 10 months ago, created a question with more than 1,000 views. For Runs of homozygosity
Popular Question 10 months ago, created a question with more than 1,000 views. For Ambiguous reads unmapped disappear with FMD Salmon?
Popular Question 10 months ago, created a question with more than 1,000 views. For From transcripts counts of Salmon to genes counts needed by edgeR
Popular Question 10 months ago, created a question with more than 1,000 views. For Transcripts ID matching in tximport for edgeR
Popular Question 10 months ago, created a question with more than 1,000 views. For How tximport work with gencode transcripts?
Popular Question 10 months ago, created a question with more than 1,000 views. For edgeR error related to tximport
Popular Question 11 months ago, created a question with more than 1,000 views. For edgeR error related to tximport
Popular Question 12 months ago, created a question with more than 1,000 views. For Relatedness vs relatedness2 from vcftools give different results
Popular Question 12 months ago, created a question with more than 1,000 views. For How can I convert from bed to bed12 format?
Popular Question 12 months ago, created a question with more than 1,000 views. For edgeR error related to tximport
Popular Question 12 months ago, created a question with more than 1,000 views. For Runs of homozygosity
Popular Question 12 months ago, created a question with more than 1,000 views. For STAR reasonable parameters
Popular Question 14 months ago, created a question with more than 1,000 views. For Exac and gnomad MAF value in VCF
Popular Question 14 months ago, created a question with more than 1,000 views. For STAR reasonable parameters
Popular Question 15 months ago, created a question with more than 1,000 views. For Kinship Relatedness using plink

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