User: horcsct

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horcsct0
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Posts by horcsct

<prev • 7 results • page 1 of 1 • next >
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arrayQualityMetrics for outlier detection
... Hi all, I want use arrayQualityMetrics for outlier detection and have two questions: 1- I will select only some of GSM of a GSE for my analysis.  Should I load all GSM for QC or only selected ones? 2- The arrayQualityMetrics report result of 6 different method for outlier: - Distances between ar ...
microarray arrayqualitymetrics outlier written 3.4 years ago by horcsct0 • updated 3.4 years ago by Wolfgang Huber13k
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RankProd: simultaneously up and down regulated gene
... Hi, With a cuttoff=0.5, the RankProd create two table for up and down regulated genes but some of genes appear in both tables. I think a specific gene can not up and down regulated simultaneously. What is wrong? Thanks  ...
rankprod differential gene expression written 3.6 years ago by horcsct0
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Comment: C: Sort clusterProfiler result
... Thanks Guangchuang Yu, But this only sort displayed category (showCategory) not all category. I want plot 10 category with max count. ...
written 3.6 years ago by horcsct0
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Sort clusterProfiler result
... Hi, How can I sort the clusterProfiler package results (groupGOResult object) for instance according GeneRatio in groupGO? Thanks. ...
clusterprofiler sort written 3.6 years ago by horcsct0 • updated 21 months ago by sghoshucla0
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Combine RankProd output Tables (up & down)
... Dear all, The result of DEG analysis e.g. by limma is a sorted list by p-value for genes up or down regulated. But RankProd outputs two separate tables for up regulated genes and down regulated ones. How can I combine tables for obtain a single ordered list by their importance in the difference bet ...
rankprod written 3.6 years ago by horcsct0
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Comment: C: GOSemSim problem for yeast proteins
... Thanks very much. ...
written 4.2 years ago by horcsct0
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GOSemSim problem for yeast proteins
... I have a problem when I try to use GOSemSim to calculate the GO semantic similarities between yeast proteins. geneSim("852494", "854869", ont = "MF", organism="yeast", measure="Resnik") return below result: [1] NA Warning messages: 1: In is.na(go) : is.na() applied to non-(list or vector) of type ...
yeast gosemsim written 4.2 years ago by horcsct0 • updated 4.2 years ago by Guangchuang Yu1.1k

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