User: Corentin
Corentin • 50
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Posts by Corentin
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... As an alternative to PCA you can also try MDS plots : https://www.rdocumentation.org/packages/edgeR/versions/3.14.0/topics/plotMDS.DGEList but it should give similar results ...
written 5 days ago by
Corentin • 50
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Answer:
A: expression to networking
... If you have access to the enzyme annotations for your genes, you can use the KEGG API which can link enzymes to kegg pathways (http://www.kegg.jp/kegg/rest/keggapi.html). You can use R (or your favorite language) to access the API.
The file to link enzymes and pathways is available here : http://re ...
written 5 weeks ago by
Corentin • 50
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... Hi,
There are already a few tools out there for CNV detection: [https://omictools.com/cnv-detection2-category][1] . They are often specialised in Exome sequence data.
You can take a look at how they work. Their implementation is described in the associated paper (when there is one).
I know that ...
written 5 months ago by
Corentin • 50
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... Thank you for your answer,
I had a look with IGV and these transcripts are indeed overlapping isoforms (they are almost the same). ...
written 5 months ago by
Corentin • 50
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... Hi,
I ran the tuxedo pipeline on rna seq data. And I used RSEM/limma for the differential expression analysis.
I noticed something peculiar in the counts matrix from RSEM, some transcripts have exactly the same expression level for all the samples:
"TCONS_00086761" 46.23 46.23 61.4 ...
written 5 months ago by
Corentin • 50
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