User: bio94

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bio9440
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Posts by bio94

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Comment: C: How to find key apoptotic markers across subtypes of a colorectal cancer dataset
... Thanks very much Kevin. ...
written 5 months ago by bio9440
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How to find key apoptotic markers across subtypes of a colorectal cancer dataset?
... I performed CMS and CRIS classification on the dataset GSE14333 and I have added the respective CMS and CRIS labels to my phenotype. I was wondering on how to proceed from here on, to find the key apoptotic markers across subtypes. I am sort of new to this whole thing, so would appreciate any help ...
R cancer apoptotic subtypes markers written 5 months ago by bio9440 • updated 5 months ago by Kevin Blighe35k
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Boxplot each row in a dataset in R?
... How do I boxplot each row in a dataset in R? In the dataset below, I want to plot RF.CMS1.posteriorProb, RF.CMS2.posteriorProb, RF.CMS3.posteriorProb and RF.CMS4.posteriorProb for each GSM sample in column X. So separate boxplots for each row in column X, in R. Appreciate any help in this regard. ...
boxplot dataset plot R cancer written 5 months ago by bio9440 • updated 5 months ago by cpad011210k
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Comment: C: How to know which samples are treated and untreated?
... I believe they are Adjuvant Radiotherapy and Adjuvant chemotherapy. So If It's a YES for any one of these two columns, I consider them as TREATED. If a NO for both the columns I consider them as UNTREATED? ...
written 5 months ago by bio9440
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Comment: C: How to know which samples are treated and untreated?
... Sure. Thanks very much ...
written 5 months ago by bio9440
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Comment: C: How to know which samples are treated and untreated?
... Sure, I'll have a look at that. Yes! I almost forgot that I included #. My mistake. ...
written 5 months ago by bio9440
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How to know which samples are treated and untreated?
... I am currently working on this colorectal cancer dataset GSE14333 and I was wondering as to how do I know which samples in this dataset are treated and untreated? head(GSE14333_PHENO) X Location DukesStage Age Gender DFSTime DFS_group DFSCens AdjXRT AdjCTX 1 GSM358387 Rectum ...
untreated colorectalcancer treated written 5 months ago by bio9440 • updated 5 months ago by Santosh Anand4.4k
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Comment: C: Mapping probe id's to gene symbols
... Thanks very much Emily ...
written 5 months ago by bio9440
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Comment: C: Annotate Affymetrix probesets to Gene symbols
... Thanks again, Kevin. Appreciate it. ...
written 5 months ago by bio9440
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Mapping probe id's to gene symbols
... Hello everyone, I was wondering as to how do I map the probe id's to the gene symbols so that they are in the same order. I just noticed that my annotLookup table probe id's are in a different order when compared to the original dataset. > rownames(exprs(gset))[1:10] [1] "1007_s_at" "10 ...
genesymbols annotate biomart mapping probeid written 5 months ago by bio9440 • updated 5 months ago by Emily_Ensembl16k

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