User: russhh

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russhh3.2k
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@haematobot
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Bioinformatics etc of leukaemia at University of Glasgow
 

Posts by russhh

<prev • 497 results • page 1 of 50 • next >
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Comment: C: metanalysis in R
... There's many questions related to this. For example, see [this][1] from yesterday [1]: https://www.biostars.org/p/310089/ ...
written 1 day ago by russhh3.2k
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Comment: C: Design matrix for edge R analysis?
... The contrasts are the same from a hypothesis testing perspective. I'd use the contrast 1 however (the difference between the averages) as the contrast coefficient that it returns will look like the difference on a log2 boxplot ...
written 11 days ago by russhh3.2k
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Comment: C: Null hypothesis in DESeq2
... You are correct. Stop worrying and just do your experiment ...
written 12 days ago by russhh3.2k
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Comment: C: Null hypothesis in DESeq2
... What are you talking about? Significance is a technical term; a "significant gene" in the context of a hypothesis test for a given coefficient (or contrast) is one for which the probability of getting a more extreme observation under the conditions of the null hypothesis is less than your threshold. ...
written 13 days ago by russhh3.2k
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Comment: C: Null hypothesis in DESeq2
... Yes it does use null hypothesis-base significance testing. `X is not signficant` is not a statistical hypothesis; depending on your experimental setup / design etc the null used by DESeq2 would typically be that "Coefficient Y is zero for gene X". ...
written 13 days ago by russhh3.2k
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Comment: C: checking PDF version of manual ... WARNING
... We can't really do anything with the information provided. Have you tried compiling the manual outside of R CMD build? ...
written 13 days ago by russhh3.2k
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Comment: C: How to differ color based on rise or fall of values in boxplot ?
... post it in your original question; and, rather than posting it in a non-copyable way, could you read [this][1] and post the output of using `dput`. [1]: https://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example ...
written 16 days ago by russhh3.2k
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Comment: C: Comparing work done on RNA seq data
... Will biostars be first author? ...
written 20 days ago by russhh3.2k
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Comment: C: Using DESeq2 results for building a classifier
... Thanks for sharing your process. I think publication level queries are best kept off a Q&A site, seems a bit presumptuous to me. ...
written 20 days ago by russhh3.2k
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Comment: C: How to differ color based on rise or fall of values in boxplot ?
... Then make-up some data that conforms to the data structure that you are working with <\!!!> See the help for tidyr::gather and look what happens after each step of data-manipulation that I gave you. Those are the columns that are gathered into the Accuracy column (of the output data) from t ...
written 22 days ago by russhh3.2k

Latest awards to russhh

Commentator 10 days ago, created a comment with at least 3 up-votes. For C: fisher test with multiple samples
Commentator 23 days ago, created a comment with at least 3 up-votes. For C: fisher test with multiple samples
Teacher 27 days ago, created an answer with at least 3 up-votes. For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Scholar 27 days ago, created an answer that has been accepted. For C: muTect analysis, error
Popular Question 10 weeks ago, created a question with more than 1,000 views. For Has the RNA-Seq Atlas website closed?
Popular Question 3 months ago, created a question with more than 1,000 views. For VariantAnnotation parallel usage
Good Answer 4 months ago, created an answer that was upvoted at least 5 times. For A: R survival analysis
Appreciated 4 months ago, created a post with more than 5 votes. For C: Venn/Euler Diagram Of Four Or More Sets
Commentator 4 months ago, created a comment with at least 3 up-votes. For C: fisher test with multiple samples
Scholar 5 months ago, created an answer that has been accepted. For C: muTect analysis, error
Appreciated 5 months ago, created a post with more than 5 votes. For C: Venn/Euler Diagram Of Four Or More Sets
Good Answer 6 months ago, created an answer that was upvoted at least 5 times. For A: R survival analysis
Scholar 6 months ago, created an answer that has been accepted. For C: muTect analysis, error
Scholar 7 months ago, created an answer that has been accepted. For C: muTect analysis, error
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Appreciated 9 months ago, created a post with more than 5 votes. For C: Venn/Euler Diagram Of Four Or More Sets
Scholar 9 months ago, created an answer that has been accepted. For C: muTect analysis, error
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Commentator 10 months ago, created a comment with at least 3 up-votes. For C: fisher test with multiple samples
Commentator 10 months ago, created a comment with at least 3 up-votes. For C: fisher test with multiple samples
Scholar 10 months ago, created an answer that has been accepted. For C: muTect analysis, error
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Scholar 11 months ago, created an answer that has been accepted. For C: muTect analysis, error
Scholar 11 months ago, created an answer that has been accepted. For A: scripting problem to use ProtComp output to identify secretome proteins

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