Moderator: Wolfgang Huber
Wolfgang Huber ♦ 13k
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Posts by Wolfgang Huber
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... A joint postdoctoral project is planned by the groups of Aissam Ikmi and Wolfgang Huber at EMBL Heidelberg to develop cutting-edge computational approaches at the intersection of developmental and regenerative biology. The goal of the project is to build an integrated ‘big-data’ based quantitative m ...
written 4 days ago by
Wolfgang Huber ♦ 13k
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Answer:
A: IHW scale of problem
... In addition, you can randomly sample your hypotheses with various sample sizes, measure run time using e.g. *system.time* or the *microbenchmark* package, plot time against number of hypotheses, see that the relationship is linear, measure the slope, and predict the run time for your problem size.
N ...
written 4 days ago by
Wolfgang Huber ♦ 13k
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... # Postdoctoral Fellow in Computational Single Cell Genetics
**About the team:** The research group of Wolfgang Huber at EMBL works on biological data science and mathematical/computational method development. The interdisciplinary and international team has strong collaborations with researchers i ...
written 3 months ago by
Wolfgang Huber ♦ 13k
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... We invite you to participate in this year's edition of the summer course **Statistical Data Analysis for Genome Scale Biology** in beautiful Brixen, Italy, from 21-26 July 2019. Course programme and more info are here: https://www.huber.embl.de/csama2019
Confirmed faculty include
- Vincent J. Car ...
written 3 months ago by
Wolfgang Huber ♦ 13k
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... A thoughtful approach to differential detection for label-free (LFQ) mass spec data is Constantin Ahlmann-Eltze's and Simon Anders' proDD. It explicitly takes into account and models the non-detections. The current state of this work is here: https://github.com/const-ae/proDD and I understand this i ...
written 3 months ago by
Wolfgang Huber ♦ 13k
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... Marc: one thing you could do in addition to the mean-sd plots is look at MA-plots of pairs of samples: i.e., sample many pairs out of all possible pairs randomly, or look especially at replicates or very similar samples. ...
written 3 months ago by
Wolfgang Huber ♦ 13k
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... It's impossible to say for sure without you giving reproducible code, but expressions like this are dangerous
```
assay(vsdyear)[ immune_genes_paper$Gene_ID, ...]
```
if `Gene_ID` can either be a character vector or a factor. Namely, if `Gene_ID` is a factor, it is converted to an integer vector c ...
written 4 months ago by
Wolfgang Huber ♦ 13k
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... Visit the EMBL Job site: https://www.embl.de/jobs/searchjobs/index.php?ref=HD01466
The research groups of Wolfgang Huber at EMBL and Oliver Stegle at DKFZ and EMBL, located in Heidelberg, work on machine learning and statistical computing solutions for cutting-edge biology and biomedicine research. ...
written 4 months ago by
Wolfgang Huber ♦ 13k
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... Have a look at the vignette *Advanced topics: Customizing arrayQualityMetrics reports and programmatic processing of the output of the package*. You could eliminate certain parts of the report that take a very a long time, or write code to parallelize them. ...
written 4 months ago by
Wolfgang Huber ♦ 13k
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... The warning message you quote cannot have been generated from a recent version of `arrayQualityMetrics`, see e.g. [https://github.com/grimbough/arrayQualityMetrics/blob/master/R/makeColors.R][1]. Are you sure you are not using an older version of the package?
[1]: https://github.com/grimbough/ar ...
written 4 months ago by
Wolfgang Huber ♦ 13k
Latest awards to Wolfgang Huber
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6 months ago,
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For European Bioconductor Developers' Meeting 12th-13th January 2015, Heidelberg
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12 months ago,
created an answer with at least 3 up-votes.
For A: package specifically dedicated to a manuscript
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12 months ago,
created an answer that has been accepted.
For A: Using DESeq2 normalisation method on a tximport list of matrices without sample
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created a post with more than 5 votes.
For exprs function - clash with dplyr
Popular Question
12 months ago,
created a question with more than 1,000 views.
For European Bioconductor Developers' Meeting 12th-13th January 2015, Heidelberg
Student
13 months ago,
asked a question with at least 3 up-votes.
For exprs function - clash with dplyr
Scholar
13 months ago,
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For A: Using DESeq2 normalisation method on a tximport list of matrices without sample
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24 months ago,
created a question with more than 1,000 views.
For Course announcement: CSAMA 2015 (13th ed.) Statistics and Computing in Genome Data Science
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24 months ago,
received more than 100 upvotes.
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24 months ago,
created a post with more than 5 votes.
For BoF "Writing papers in Rmarkdown, BiocStyle... (and books, posters)"
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24 months ago,
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For Postdocs in Computational Biology / Statistical Data Analysis at EMBL and Univ. Hospital Heidelberg: mechanisms of drug response from ex-vivo large-scale drug testing and multi-omics in cancer
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2.0 years ago,
created an answer that has been accepted.
For A: Nonspecific filtering of microarray data
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For Bioconductor-related papers -- special F1000Research collection for Bioc2016
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2.3 years ago,
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For A: package specifically dedicated to a manuscript
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2.3 years ago,
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For A: package specifically dedicated to a manuscript
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For A: DESeq2 interacting with agricolae
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3.2 years ago,
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For A: Processing imaging data from high throughput compound screen with EBImage
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3.2 years ago,
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For A: DESeq2 interacting with agricolae
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For A: How is the mean-variance plot calculated?
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For A: arrayQualityMetrics error: Error: Unknown parameters: cex.axis
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3.2 years ago,
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For A: plotMA for unshrunken LFC in deseq2
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