User: Jack.Hearn

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Jack.Hearn0
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Posts by Jack.Hearn

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Comment: C: DESeq2: Minimal experiment-wide log-fold change differences between treatments
... Many thanks for your input! ...
written 7 months ago by Jack.Hearn0
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Comment: C: DESeq2: Minimal experiment-wide log-fold change differences between treatments
... Thanks for this. For reference here are the PCA and unshrunken LFC MA plot for the same contrast: ...
written 7 months ago by Jack.Hearn0
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DESeq2: Minimal experiment-wide log-fold change differences between treatments
... Dear all, Our experiments is based on gene expression of a single tissue with contrasts between 3 treatments of 3 replicates. Each set of replicates was sampled from the same population and prepared and sequenced concurrently. We have performed RNASeq as follows: 1. Align reads to reference with ...
deseq2 written 7 months ago by Jack.Hearn0 • updated 7 months ago by Michael Love26k
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Comment: C: Post-hoc filtering on the standard deviation in proportions
... Great, thanks for the swift reply! As a follow up I'm interested in contrasts from DRIMSeq so I assume the filtering and StageR steps need to be run for each contrast, that being the results of each "dmTest" performed. ...
written 11 months ago by Jack.Hearn0
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Post-hoc filtering on the standard deviation in proportions
... Hello, I am following the "Swimming downstream" vignette for dtu using DRIMSeq and StageR and would like to clarify something. Does the output of section "5.3 Post-hoc filtering on the standard deviation in proportions" become the input for section "5.2 stageR following DRIMSeq" if performing the f ...
drimseq stager rnaseqdtu written 11 months ago by Jack.Hearn0 • updated 11 months ago by Michael Love26k

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