User: A

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A0
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Posts by A

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Comment: C: Differential expression between multiple groups
... I believe so!, yes that would give me the comparisons against all groups! And is there a way of finding a core set of differentially expressed genes that are common to groups that I chose as given in the example in my question? ...
written 13 hours ago by A0
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Differential expression between multiple groups
... Hi all,  I just wanted to ask a general question about the best way to go about carrying out differential expression analysis between multiple groups. I have a microarray data set that has 10 different groups (i.e, 10 organs in one age group). Essentially what I want to do is find a common core set ...
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Comment: C: GeneList issue ClusterProfiler
... Thank you so so much! I really appreciate your help! it is indeed nice to know that the gentlest itself is ok. The main reason I am wanting to do this analysis is to look for directionality in the data and plot it, which is why I am using gseKEGG, so I can use the sseaplot functions. I will play aro ...
written 8 days ago by A0
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Comment: C: GeneList issue ClusterProfiler
... Many thanks! and great point! I had not realised, however, adding mmu results in the same output so I wonder if they are interchangeable and accepted the gseKEGG function ? Output is as follows: head(geneListadvsDDS),  15496     28248 100039008     28248     57266     12686   8.425410  8.354373  7 ...
written 8 days ago by A0
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Comment: C: GeneList issue ClusterProfiler
... Would it be possible to resurrect this thread as I am also having problems with the geneList issue.  I am having trouble with the geneList issue even after carrying out the troubleshooting steps above.  I get the error: Error in data.frame(ID = as.character(tmp_res$pathway), Description = Descript ...
written 8 days ago by A0
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Comment: C: Subsetting GSE data with information from two different slots
... Awesome! Thank you so much for clearing that up, and yes will save these R related questions for those forums. Many thanks again! A ...
written 14 days ago by A0
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Subsetting GSE data with information from two different slots
... Hi all,  I was wondering if anybody could help. I have relatively simple problem, but can't seem to figure out the solution. I am trying to subset some data from a GSE sequencing data that contains 100+ sequencing samples. I am subsetting based on tissue type (and normal vs tumor). The problem I a ...
microarray gse subsetting written 16 days ago by A0 • updated 15 days ago by Axel Klenk820

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