User: jimmy0958073736

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Posts by jimmy0958073736

<prev • 17 results • page 1 of 2 • next >
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Comment: C: edgeR glmRT code error message
... Oh, that's right. I missed that. THX ...
written 4 weeks ago by jimmy09580737360
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edgeR glmRT code error message
... Hi everyone, I did edgeR to analyze no replicated sample with the following code. Unfortunately, I met some of the problems that I can't fix. count <- read.table("D:/NDM-12-4/test/Vero.CH.CH-C100.normalisedReadCounts.txt", sep = "\t", header = T, row.names = 1) view(count) d1 &l ...
R gmlrt edger written 4 weeks ago by jimmy09580737360
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Answer: A: Can be possible to analyze in multiple sample without replicated in edgeR
... Hi Jared, thank you. After I read the manual, all the questions were fixed. With the three samples and no replicated result, I follow the manual to adjust the following code. count <- read.table("D:/NDM-12-4/test/Vero.CH.CH-C100.normalisedReadCounts.txt", sep = "\t", header = T, row.names = ...
written 5 weeks ago by jimmy09580737360
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Comment: C: Can be possible to analyze in multiple sample without replicated in edgeR
... Hi Jared Sorry I didn't mention my question. Can I use upon DEG code to analyze in different three samples? And how I adjust the code? ...
written 5 weeks ago by jimmy09580737360
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Can be possible to analyze in multiple sample without replicated in edgeR
... Hi everyone I met some confusing issues in edgeR. and DEG Right now I have three samples without any replicated. I wonder to know to have any possibility to combine three samples for analysis (With the replicated sample, I used DEseq2 than before but right now I don't have any idea to analyze) ...
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Comment: C: Green monkey edgeR in GSEA analysis
... OK, I took your advice and also got some interesting result, thx ...
written 5 weeks ago by jimmy09580737360
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Comment: C: Green monkey edgeR in GSEA analysis
... Hi ATpoint Because we know that R packages do not support any species of green monkey on Bio-conductor annotation. So how can I use those log fold change result attached on GSEA? And I also know this data can't be published, it just wants to know having any phenome inside that. ...
written 6 weeks ago by jimmy09580737360
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Green monkey edgeR in GSEA analysis
... Hi everyone I'm looking forward to any method that could figure out the green monkey GSEA result. Here's my edgeR result without replicated - ---------- gene_id logFC logCPM PValue 1 ENSCSAG00000017073 1.150721465 5.910470 ...
gsea edger bio-conductor written 6 weeks ago by jimmy09580737360
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Answer: A: Error in GSEA function of clusterProfiler on R
... Thanks, Hannes **Warning 1/2** I think warning one and two seems like a long term problem with those involved in this field. Exactly I'm not so sure that I could put this figure on my review. In fact, I also ran out the same data to GSEA tools, but the data looks so different in both. I'm so worri ...
written 7 weeks ago by jimmy09580737360
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Comment: A: Error in GSEA function of clusterProfiler on R
... kk2 <- gseKEGG(geneList=geneList, keyType = "ENTREZID", nPerm = 10000, minGSSize = 3, maxGSSize = 800, pvalueCutoff = 0.05, verbose = TRUE, OrgDb = org.Mm.eg.db, ...
written 8 weeks ago by jimmy09580737360

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