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Moderator: Kevin Blighe

gravatar for Kevin Blighe
Kevin Blighe ♦ 63k
Reputation:
63,020
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Website:
https://github.com/kev...
Twitter:
KevinBlighe
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Google Scholar Page
Last seen:
10 hours ago
Joined:
2 years, 11 months ago
Email:
k****@clinicalbioinformatics.co.uk

I am from the Republic of Ireland and have worked with dozens of universities, private companies, healthcare providers, and research institutes across the World, effectively functioning as a self-funded, independent research lab.

I contribute to the European Commission as an Expert Monitor, and also Moderate on the Biostars and Bioconductor support communities.
 

Developer / Maintainer of Bioconductor packages:

Other packages:

LinkedIn: https://www.linkedin.com/in/clinicalbioinformatics/

 

Posts by Kevin Blighe

<prev • 8,579 results • page 1 of 858 • next >
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Comment: C: How does AverageExpression() and aggregateData() differ from each other?
... This is likely a question that no general user can answer. You would have to look through the code for both functions, or just ask the respective authors directly. One thing is for sure: expect the unexpected in bioinformatics. There is no regulation in this field. ...
written 11 hours ago by Kevin Blighe ♦ 63k
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Comment: C: Cannot get read.celfiles() method to work?
... Please shoe the output of `sessionInfo()`. Also try `oligo::read.celfiles(CELFiles)` ...
written 11 hours ago by Kevin Blighe ♦ 63k
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Comment: C: how to calculate p-value of Cuffdiff result?
... I think that the user has a 1 vs 1 comparison. dahun73, there is not much that you can do with this data. I would only go as far as trying to identify novel transcripts in each sample via HISAT2 / StringTie ...
written 12 hours ago by Kevin Blighe ♦ 63k
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Comment: C: ERROR while adding gene names
... Define "most" ...
written 12 hours ago by Kevin Blighe ♦ 63k
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Answer: A: How does AverageExpression() and aggregateData()
... Hey Researcher, The difference between these two functions can be easily determined by just reading the manual page entries: - https://www.rdocumentation.org/packages/Seurat/versions/3.1.4/topics/AverageExpression - https://rdrr.io/bioc/muscat/man/aggregateData.html I trust that you can now mak ...
written 12 hours ago by Kevin Blighe ♦ 63k
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Answer: A: How to analyze Exome Seq data for GWAS
... Import the VCF data to PLINK, and then perform the analysis there. Kevin ...
written 15 hours ago by Kevin Blighe ♦ 63k
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Comment: C: survival analysis in R
... please research these things yourself. ...
written 23 hours ago by Kevin Blighe ♦ 63k
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Comment: C: Heatmap based with FPKM values
... Actually, in the latest versions of `gplots::heatmap.2()`, if you just increase the value of `cexRow`, it should place them such that no names overlap (meaning that some names will also be excluded from the final figure). ...
written 2 days ago by Kevin Blighe ♦ 63k
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Comment: C: Heatmap based with FPKM values
... This is a consistent problem with these old heatmap functions, unfortunately. If you have time, you could take a look at ComplexHeatmap, where this issue is tackled. I have a tutorial that you can follow: https://github.com/kevinblighe/E-MTAB-6141 ...
written 2 days ago by Kevin Blighe ♦ 63k
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Comment: C: Heatmap based with FPKM values
... Hi, you just need `data.matrix(heat)` ...
written 2 days ago by Kevin Blighe ♦ 63k

Latest awards to Kevin Blighe

Teacher 2 days ago, created an answer with at least 3 up-votes. For A: Correcting for population structure in GWAS?
Scholar 2 days ago, created an answer that has been accepted. For A: Correcting for population structure in GWAS?
Scholar 4 days ago, created an answer that has been accepted. For A: Correcting for population structure in GWAS?
Scholar 4 days ago, created an answer that has been accepted. For A: Correcting for population structure in GWAS?
Scholar 5 days ago, created an answer that has been accepted. For A: Correcting for population structure in GWAS?
Scholar 5 days ago, created an answer that has been accepted. For A: Correcting for population structure in GWAS?
Epic Question 5 days ago, created a question with more than 10,000 views. For Network plot from expression data in R using igraph
Good Answer 6 days ago, created an answer that was upvoted at least 5 times. For A: PCA: summarize results from principal components analysis and look for populatio
Good Answer 6 days ago, created an answer that was upvoted at least 5 times. For A: pheatmap annotation - legend only for columns
Appreciated 6 days ago, created a post with more than 5 votes. For A: pheatmap annotation - legend only for columns
Appreciated 7 days ago, created a post with more than 5 votes. For CorLevelPlot - Visualise correlation results, e.g., clinical parameter correlations
Scholar 9 days ago, created an answer that has been accepted. For A: Correcting for population structure in GWAS?
Good Answer 9 days ago, created an answer that was upvoted at least 5 times. For A: PCA: summarize results from principal components analysis and look for populatio
Good Answer 9 days ago, created an answer that was upvoted at least 5 times. For A: pheatmap annotation - legend only for columns
Teacher 12 days ago, created an answer with at least 3 up-votes. For A: Correcting for population structure in GWAS?
Appreciated 12 days ago, created a post with more than 5 votes. For CorLevelPlot - Visualise correlation results, e.g., clinical parameter correlations
Teacher 13 days ago, created an answer with at least 3 up-votes. For A: Correcting for population structure in GWAS?
Teacher 16 days ago, created an answer with at least 3 up-votes. For A: Correcting for population structure in GWAS?
Teacher 17 days ago, created an answer with at least 3 up-votes. For A: Correcting for population structure in GWAS?
Scholar 21 days ago, created an answer that has been accepted. For A: Correcting for population structure in GWAS?
Teacher 22 days ago, created an answer with at least 3 up-votes. For A: Correcting for population structure in GWAS?
Scholar 22 days ago, created an answer that has been accepted. For A: Correcting for population structure in GWAS?
Teacher 23 days ago, created an answer with at least 3 up-votes. For A: Correcting for population structure in GWAS?
Appreciated 26 days ago, created a post with more than 5 votes. For A simple tutorial for a complex ComplexHeatmap
Scholar 27 days ago, created an answer that has been accepted. For A: Correcting for population structure in GWAS?
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