User: christiangriffioen

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Posts by christiangriffioen

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What is the "linear model" part used for in Limma?
... I was wondering if someone could explain what the "linear modelling" part in Limma (linear models for microarray data) does. I've done a lot of reading in manuals already and nowhere it seems to make me understand what is done and why. The manual says this: *You have to start by fitting a linear m ...
limma R linear models written 8 months ago by christiangriffioen0 • updated 8 months ago by Aaron Lun25k
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Comment: C: Simple differential expression analysis for 2 groups
... This manual right, where is the data they are working with? They have all these examples but the data is nowhere nowhere to be found. Where is "targets.txt" for example or "eset"? ...
written 14 months ago by christiangriffioen0
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Simple differential expression analysis for 2 groups
... Hello, I have 1 csv file containing 200, 100 of 'group A' and 100 of 'group B' looking like this:                 sample1   sample2   sample3   samepl4   sample5 etc...                   groupA     groupA      groupA     groupA     groupA  etc...  groupB    groupB     groupB probe1     7.823    ...
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Comment: C: what does "mean base quality" mean?
... Oh thank you very much! Weird that they don't mention it on the Y-axis   ...
written 3.0 years ago by christiangriffioen0
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what does "mean base quality" mean?
... We did this quality control with Ioniser in R, with our paired-end nanopore FastQ data it's about the Y-axis "mean base quality per read" in the quality graph What does the "Mean base quality per read mean?? it's to low to be PHRED for instance You can see it here: https://gyazo.com/df7cd33fddd1 ...
base quality quality mean base quality written 3.0 years ago by christiangriffioen0 • updated 3.0 years ago by Mike Smith4.0k
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Comment: C: quality control, what does it mean
... Ioniser with R it's about the Y-axis "mean base quality per read": You can see it here: https://gyazo.com/df7cd33fddd1b41a7fab138720fda634 (hope the link works) ...
written 3.0 years ago by christiangriffioen0
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quality control, what does it mean
... What exaclty do the numbers mean in de graph for "mean base quality per read" its to low to be Phred for instance. ...
quality control written 3.0 years ago by christiangriffioen0

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Popular Question 14 months ago, created a question with more than 1,000 views. For what does "mean base quality" mean?

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