User: sHeyne

gravatar for sHeyne
sHeyne30
Reputation:
30
Status:
New User
Location:
Freiburg, Germany
Last seen:
2 days, 14 hours ago
Joined:
2 years, 1 month ago
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s************@gmail.com

Posts by sHeyne

<prev • 4 results • page 1 of 1 • next >
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Comment: C: ERROR when I run Pathview()
... Can you fix this in the pathview package? See my answer! ...
written 6 weeks ago by sHeyne30
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Answer: A: ERROR when I run Pathview()
... I also run into the same problem. I think the solution is to name the right package/namespace within geneannot.map() from pathview, ie. AnnotationDbi::select(), to be not in conflict with select from dplyr! in my version I changed line 52 in function `geneannot.map()` from res <- try(su ...
written 6 weeks ago by sHeyne30
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Answer: A: Strange MA-plot using DESeq2
... The red cloud at the bottom looks like a contamination from some other cell/tissue type (in case of eg. mouse or human). In your case, all samples/replicates are from "whole body" beetles? Don't know how this then could happen... In order to see if this effect relates to one or more replicates, you ...
written 9 months ago by sHeyne30
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Comment: C: Current state-of-the-art for RNA-Seq gene / transcript expression quantification
... Methods like Salmon seem powerful and they overall do a good job, however recently I stumbled upon the (at least Salmon's) behavior on "multi" vs "uniquely" mapping reads (in featureCounts/htseq-count terms, Salmon uses SMEMs/k-mers). Eventhough there are some parameters to influence salmon like ...
written 2.2 years ago by sHeyne30

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Teacher 9 months ago, created an answer with at least 3 up-votes. For A: Strange MA-plot using DESeq2

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