User: robjohn70000

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robjohn70000120
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Nigeria
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4 months, 2 weeks ago
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Posts by robjohn70000

<prev • 39 results • page 1 of 4 • next >
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Comment: C: How to predict individual ethnicity information by using hapmap data
... Thanks @Kevin Blighe ...
written 5 months ago by robjohn70000120
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Comment: C: Variant calling in large sample populations
... @Pierre Lindenbaum. Thanks for reminiding me. I totally forgot. ...
written 5 months ago by robjohn70000120
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Comment: C: Variant calling in large sample populations
... Thanks @Pierre Lindenbaum ...
written 5 months ago by robjohn70000120
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Comment: C: Variant calling in large sample populations
... Thanks for the workflow adivse @agata88. I will take care of @ATpoint point on samtools pileup as well. ...
written 5 months ago by robjohn70000120
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Comment: C: Variant calling in large sample populations
... I really appreciate the info @Pierre Lindenbaum. Do I need to chuck the files by chromosomes at some stage - not really sure about this. Thanks. ...
written 5 months ago by robjohn70000120
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Comment: C: Variant calling in large sample populations
... Thanks for raising the two potential problems @ATpoint. We have a machine with 250G RAM and 5TB of Hard Drive. However, I wonder if the work is still feasible with these amounts of resources. ...
written 5 months ago by robjohn70000120
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Variant calling in large sample populations
... Hi, I will like to carry out variant calling from fastq files (whole genomes from a large number of samples ~ several hundreds) for genetics association studies. I have come across some pipelines but not sure which one is the best for what I want to do. Can anyone with experience in batch variant ...
genome gatk sequence sequencing written 5 months ago by robjohn70000120 • updated 5 months ago by Pierre Lindenbaum122k
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Comment: C: How to predict individual ethnicity information by using hapmap data
... This plot looks great @ Kevin Blighe . How did you do the plotting of the samples into ethnicity 'strata' - any R package used? Thanks ...
written 5 months ago by robjohn70000120
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How to map SNP rsids to genes and flanks
... Hi, I have a long list of human genes like this: ATR, BAK1, BAX ...... I will like to extract all snps in this region: 1KB of sequence (5') + gene + 1kb of sequence (3'). How can I easily carry out this extraction? Thanks ...
gene R sequence snp genome written 7 months ago by robjohn70000120 • updated 7 months ago by Emily_Ensembl18k
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How to filter Michigan genotype imputation results
... Hi, I have just downloaded imputation result files from the Michigan Imputation Server. The files include ".info.gz" and ".dosage.gz". I will like to filter the genotype results by R^2 > 0.8 to obtain good quality imputed genotypes. I'm new to this kind of analysis and not sure how to proceed fr ...
gwas rsq qc imputation written 16 months ago by robjohn70000120 • updated 14 months ago by GK161060

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Popular Question 3.8 years ago, created a question with more than 1,000 views. For Does whole genome sequencing capture plasmids?

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