Moderator: Giovanni M Dall'Olio

Reputation:
25,300
Status:
Trusted
Location:
London, UK
Website:
http://bioinfoblog.it/
Twitter:
dalloliogm
Scholar ID:
Google Scholar Page
Last seen:
12 hours ago
Joined:
7 years, 10 months ago
Email:
d*********@gmail.com

Research Associate at the King's College of London. Interested in human population genetics and cancer.

Posts by Giovanni M Dall'Olio

<prev • 1,373 results • page 1 of 138 • next >
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Comment: C: Boxplot in ggplot2
... This is good but I would use gather from tidyr. The package tidyr is the evolution of reshape2, and it contains more functions to massage data and reshape it for ggplot2/tidyverse. ...
written 6 days ago by Giovanni M Dall'Olio25k
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Comment: C: p-value in GSEA
... Just a clarification: the p-values did not change because of the order of genes, but because of a different random number seed. Try running the same analysis on the same set without changing the order, and the p-values will be different again. ...
written 4 months ago by Giovanni M Dall'Olio25k
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Comment: C: p-value in GSEA
... Moderator note: I've moved this from a comment to a reply, so it can be voted as a proper answer. ...
written 4 months ago by Giovanni M Dall'Olio25k
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Answer: A: Converting gene ids to each other
... In my personal order of preference: - Mygene.info http://mygene.info/ - can recognize many types of IDs automatically. When an Ensembl ID matches to multiple Entrez ID, they hacked a way to map to only the entrez id with the correct symbol - HGNC Biomart http://biomart.genenames.org/ - HGNC is th ...
written 6 months ago by Giovanni M Dall'Olio25k
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Comment: C: Poll: How many people have PyPy?
... Why would I need to have PyPy installed? ...
written 6 months ago by Giovanni M Dall'Olio25k
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Comment: C: PCA for deregulated genes - technical question
... I agree with your comments - it seems something is wrong with the experiment, there it should not be so many NAs. The best thing to do would be to revise the design. ...
written 6 months ago by Giovanni M Dall'Olio25k
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Comment: C: Different results with edgeR when adding gene symbols
... how many rows do you have before and after adding the gene names? ...
written 6 months ago by Giovanni M Dall'Olio25k
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Comment: C: How to make a color plot out of three columns from a dataframe in R?
... Just remove the geom_text() part that you don't need. ...
written 6 months ago by Giovanni M Dall'Olio25k
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Answer: A: How to make a color plot out of three columns from a dataframe in R?
... I haven't understood very well what you are asking, but I think this code will help you. I switched the X and Y axis because if the plot contains 1000s of values, putting them all on the X axis will be unreadable, unless you have a very wide plot. Note that your input data contains some duplicated ...
written 6 months ago by Giovanni M Dall'Olio25k
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Comment: C: How to make a color plot out of three columns from a dataframe in R?
... but if you have 1000s of IDs as you say, then the plot will become very confused. You will not be able to read the ID names, unless you have a very long plot. ...
written 6 months ago by Giovanni M Dall'Olio25k

Latest awards to Giovanni M Dall'Olio

Appreciated 1 day ago, created a post with more than 5 votes. For C: Computing Number Of Nucleotide And Genes On Each Chromosome
Commentator 13 days ago, created a comment with at least 3 up-votes. For C: Computing Number Of Nucleotide And Genes On Each Chromosome
Great Question 21 days ago, created a question with more than 5,000 views. For A Database Of Signatures Of Selection In The 1000 Genomes Dataset
Commentator 24 days ago, created a comment with at least 3 up-votes. For C: Computing Number Of Nucleotide And Genes On Each Chromosome
Great Question 4 weeks ago, created a question with more than 5,000 views. For A Database Of Signatures Of Selection In The 1000 Genomes Dataset
Appreciated 7 weeks ago, created a post with more than 5 votes. For What Is Your Experience With The String (Interactions) Database?
Appreciated 7 weeks ago, created a post with more than 5 votes. For What Is Your Experience With The String (Interactions) Database?
Great Question 9 weeks ago, created a question with more than 5,000 views. For A Database Of Signatures Of Selection In The 1000 Genomes Dataset
Appreciated 12 weeks ago, created a post with more than 5 votes. For What Is Your Experience With The String (Interactions) Database?
Popular Question 3 months ago, created a question with more than 1,000 views. For What Is Your Experience With The String (Interactions) Database?
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Appreciated 4 months ago, created a post with more than 5 votes. For C: Computing Number Of Nucleotide And Genes On Each Chromosome
Good Question 4 months ago, asked a question that was upvoted at least 5 times. For What Is Your Experience With The String (Interactions) Database?
Good Answer 4 months ago, created an answer that was upvoted at least 5 times. For A: Should Biostar Be Switched Over To The Stackexchange Network?
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Great Question 6 months ago, created a question with more than 5,000 views. For A Database Of Signatures Of Selection In The 1000 Genomes Dataset
Appreciated 6 months ago, created a post with more than 5 votes. For What Is Your Experience With The String (Interactions) Database?
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: What Is The Input Format For Rnaplot In The Vienna Package?
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Good Answer 6 months ago, created an answer that was upvoted at least 5 times. For A: Color Specific Proteins/Genes On A Signaling Pathway

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