User: Markus List

gravatar for Markus List
Markus List20
Reputation:
20
Status:
New User
Location:
Freising
Website:
https://biomedical-big...
Twitter:
itisalist
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Google Scholar Page
Last seen:
10 months, 1 week ago
Joined:
4 years, 2 months ago
Email:
m**********@wzw.tum.de

Posts by Markus List

<prev • 4 results • page 1 of 1 • next >
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Comment: C: DeepBlueR - query all annotations across region
... Dear Paul, Thanks for your interest in DeepBlueR. It's not entirely clear to me what you want to achieve. Could you please have a look at the usage example in the R package? They will probably give you an idea how these queries are constructed. Generally, you will have to combine a few commands to ...
written 10 months ago by Markus List20
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Comment: C: How to convert 0 based genomic ranges found in CEEHRC bedgraph files into 1 base
... Hi Melanie, A workaround could be to use the shift function of IRanges, i.e. shift(regions, 1) Does this help? In any case it would be nice if you could add a bug report to our github page: https://github.com/MPIIComputationalEpigenetics/DeepBlueR/issues  Best, Markus       ...
written 17 months ago by Markus List20
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Answer: A: Unable to obtain SIGNAL_VALUE for bedgraph files in DeepBlueR
... Hi, You don't find any signal values because you request data from a non-existing column. You can get a preview of the file you are interested in the web interface  http://deepblue.mpi-inf.mpg.de/dashboard.php#ajax/deepblue_view_experiments.php   or via  deepblue_preview_experiment("A35262.H3K ...
written 18 months ago by Markus List20
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TCGAbiolinks XML error
... Some code that worked perfectly fine in Bioconductor 3.4 is not working any longer. It looks like the code for implementing clinical data seems broken. It there a fix / workaround available?   library(TCGAbiolinks) library(SummarizedExperiment) query <- GDCquery(project = "TCGA-LIHC", ...
tcgabiolinks written 2.4 years ago by Markus List20 • updated 2.2 years ago by lqfuture0

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