User: bengelmann

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bengelmann10
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New User
Location:
Chicago
Last seen:
1 year, 10 months ago
Joined:
4 years, 10 months ago
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b*********@uchicago.edu

Posts by bengelmann

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Comment: C: Secondary accession lookup with UniProt.ws
... Hi Marc Sorry for the brevity there. Hopefully this is a little better. Here is some example code: proteins <- c("Q15366", "B4DXP5", "B4DLC0", "F8W0G4") sequences <- select(UniProt.ws, keys = proteins, columns = "SEQUENCE", keytype = "UNIPROTKB") The "B4DXP5" accession returns NA for seq ...
written 4.4 years ago by bengelmann10
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Secondary accession lookup with UniProt.ws
... Hello I am having trouble retrieving FASTA sequences for a some uniprot identifiers. It seems that in most cases this is due to the accession number now being a 'secondary accession number'. Is there a way to retrieve sequences using these secondary accession numbers with uniprot.ws? Thanks -Bret ...
uniprot.ws written 4.4 years ago by bengelmann10 • updated 4.4 years ago by Marc Carlson7.2k
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Comment: C: ComBat - Including variable of interest in model matrix?
... Thanks Jeff! ...
written 4.8 years ago by bengelmann10
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ComBat - Including variable of interest in model matrix?
... Hello According to the latest SVA vignette, the model matrix for the ComBat function should not include variables of interest, such as treatment/control but should include other covariates, such as sex. However, in previous vignettes and the SVA documentation the model matrix is defined as the "Mod ...
sva combat written 4.8 years ago by bengelmann10 • updated 4.8 years ago by Jeff Leek560

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Popular Question 4.1 years ago, created a question with more than 1,000 views. For ComBat - Including variable of interest in model matrix?

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