User: Darren J. Fitzpatrick

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Posts by Darren J. Fitzpatrick

<prev • 57 results • page 1 of 6 • next >
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Computing Fst For Snp Data In 0,1,2 Format?
... Hi, Does anyone know of software that computes Fst values from SNP data encoded as 0, 1, 2, i.e., 0==AA, 1==Aa, 2==aa? Thanks, D. ...
snps fst written 6.6 years ago by Darren J. Fitzpatrick1.1k • updated 5.0 years ago by Biostar ♦♦ 20
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Comment: C: Wgcna: Heterogeneity Within A Module Containing Co-Expressed Genes
... "....there are the rest that behave in just the opposite fashion across samples (when plotted for their expression values) but still considered as coexpressing by the program..." - when you say they behave in the opposite fashion - do you mean that they are negatively correlated? I am not clear on w ...
written 6.9 years ago by Darren J. Fitzpatrick1.1k
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Comment: C: How To Get Info On "Clinically Associated Snps"
... When I searched for rs59176601 - I found that it has not been implicated in association studies in dbGaP. It is however a variant that results in a frameshift in MAFA. It seems that the annotation 'Clinically associated' might be rather broad - this is perhaps something to keep in mind when mining f ...
written 7.0 years ago by Darren J. Fitzpatrick1.1k
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Answer: A: How To Get Info On "Clinically Associated Snps"
... If those SNPs have an association with some trait above a certain p-value threshold - you will likely find the association in dbGaP. If you search under SNPs (rs ids) in the Phenotype-Genotype Integrator, it ewill return whether your SNPs have been reported as associations, the studies, the traits a ...
written 7.0 years ago by Darren J. Fitzpatrick1.1k
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Encode Open Chromatin Data Formats
... Hi, I was looking at some ENCODE data for regions of open chromatin and noticed that some come in a broadPeak format, some in a narrowPeak format and some in both. Can anyone tell me the difference bewteen these two formats? Thanks, D. ...
encode written 7.0 years ago by Darren J. Fitzpatrick1.1k • updated 6.2 years ago by Biostar ♦♦ 20
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Position Of Genes In Centimorgans?
... Is there a resource that gives the position of genes in the human genome in centiMorgans? Thanks, D. ...
genes written 7.2 years ago by Darren J. Fitzpatrick1.1k • updated 7.2 years ago by Pierre Lindenbaum124k
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Comment: C: Predicting Recombination From Snp Data In Trio Families
... Yep - just emailed your PI regarding the code for SNPTrio. ...
written 7.2 years ago by Darren J. Fitzpatrick1.1k
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Predicting Recombination From Snp Data In Trio Families
... Hi, Does anyone know of the existence of software that allows one to predict the occurrence of recombination events in trio families from SNP data? By the above, I mean, given SNP data from both parents, is it possible to predict the occurence of a recombination event in the child based on his/her ...
software recombination snp written 7.2 years ago by Darren J. Fitzpatrick1.1k • updated 7.2 years ago by JC9.1k
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Comment: C: What Does Nan Mean In Plink'S Sex Check?
... nan or NaN or NA in computing generally refer to something that is "Not A Number". When running statistical tests, NaN can be returned when the statistics cannot be computed, perhaps due to missing values in the data or inappropriately coded data. ...
written 7.2 years ago by Darren J. Fitzpatrick1.1k
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Comment: C: Eqtl Analysis & Snps In Microarray Probes
... Hi Larry - As per your suggestion, I opted to use the HapMap data from the latest release. By mapping my expression probes to dbSNP irrespective of population, ~2/3 of my probes contained SNPs. By restricting to the CEU HapMap population ~4000 of the 36,000 had SNPs. Thanks. ...
written 7.4 years ago by Darren J. Fitzpatrick1.1k

Latest awards to Darren J. Fitzpatrick

Guru 5.9 years ago, received more than 100 upvotes.
Supporter 5.9 years ago, voted at least 25 times.
Voter 5.9 years ago, voted more than 100 times.
Student 7.2 years ago, asked a question with at least 3 up-votes. For Position Of Genes In Centimorgans?
Student 7.5 years ago, asked a question with at least 3 up-votes. For An Easy Way To Permute/Randomise Biological Networks?
Teacher 7.5 years ago, created an answer with at least 3 up-votes. For A: Microarray Probe Expression Questions
Appreciated 7.5 years ago, created a post with more than 5 votes. For A: How To Assess Dendrogram Robustness
Teacher 7.5 years ago, created an answer with at least 3 up-votes. For A: How To Assess Dendrogram Robustness
Teacher 7.6 years ago, created an answer with at least 3 up-votes. For A: Networks: Fastest Way To Define Cliques And Connectors Between Them For Large Da
Good Answer 7.6 years ago, created an answer that was upvoted at least 5 times. For A: Networks: Fastest Way To Define Cliques And Connectors Between Them For Large Da
Student 7.8 years ago, asked a question with at least 3 up-votes. For Genotype Imputation And Population Substructure
Student 8.0 years ago, asked a question with at least 3 up-votes. For Parametric Or Non-Parametric - That Is The Question?
Student 8.1 years ago, asked a question with at least 3 up-votes. For Microarray Probes - Selecting A Representative Probe?
Teacher 8.3 years ago, created an answer with at least 3 up-votes. For A: Software To Measure Heritability With Genome-Wide Pedigree Data?
Appreciated 8.3 years ago, created a post with more than 5 votes. For A: Software To Measure Heritability With Genome-Wide Pedigree Data?
Student 8.5 years ago, asked a question with at least 3 up-votes. For Gwas - Permutation Testing?
Popular Question 8.5 years ago, created a question with more than 1,000 views. For Gwas - Permutation Testing?
Student 8.6 years ago, asked a question with at least 3 up-votes. For Heatmap Visualisations?
Popular Question 8.6 years ago, created a question with more than 1,000 views. For Heatmap Visualisations?
Appreciated 8.6 years ago, created a post with more than 5 votes. For Heatmap Visualisations?
Popular Question 8.6 years ago, created a question with more than 1,000 views. For Running Eigenstrat?
Good Question 8.7 years ago, asked a question that was upvoted at least 5 times. For Clustering Go Terms?
Popular Question 8.7 years ago, created a question with more than 1,000 views. For Clustering Go Terms?
Appreciated 8.7 years ago, created a post with more than 5 votes. For Clustering Go Terms?

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