User: judhenaosa

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judhenaosa0
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JuanHenaoS
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Posts by judhenaosa

<prev • 10 results • page 1 of 1 • next >
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Comment: C: Differentially expressed genes analysis Limma microarray
... Thanks for your help. My next question is about the lmFit function. I mean, I want to see the specific effect of the control samples over the treatment samples and the effect of the virusA vs virusB, and extract the differentially expressed genes in each individual case. However, I do not know how ...
written 2 days ago by judhenaosa0
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Differentially expressed genes analysis Limma microarray
... Hi. I have a question. I am working with a microarray with the next samples: * control_rep_1 * control_rep_2 * virusA_rep_1 * virusA_rep_2 * virusA_rep_3 * virusB_rep_1 * virusB_rep_2 * virusB_rep_3 * virusA_virusB_rep_1 * virusA_virusB_rep_2 * virusA_virusB_rep_3 I have to extract the differenti ...
R limma microarrays written 2 days ago by judhenaosa0 • updated 2 days ago by h.mon28k
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Enrichment pathways comparison between conditions
... Hi. I have the pathways obtained from an enrichment analysis for five conditions (Condition_A, Condition_B, Condition_C, and Condition_D). With the pathways lists, I made an intersection set (vennDiagram), and I obtained the number of common pathways for every possible combination just the next tab ...
R enrichment analysis statistics written 10 weeks ago by judhenaosa0 • updated 8 weeks ago by egeulgen960
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Comment: C: Multi-factor experiment RNAseq limma-voom
... Hi. I forgot to say that, I have biological replicates n=3. Regards, Juan ...
written 11 weeks ago by judhenaosa0
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Multi-factor experiment RNAseq limma-voom
... Hi. I have a question about lima-voom design. I have an experiment just like I'm showing you in the next table: Sample cell-type treatment C.A A C S.A A S C.B B C S.B B S N.A A N H. ...
limma rna-seq written 11 weeks ago by judhenaosa0
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Comment: C: How to exclude some of breast cancer subtypes just by looking at gene expressio
... Sorry. Here a new attempt. ![enter image description here][1] [1]: https://i.ibb.co/XVQ1wm0/histogram.jpg ...
written 9 months ago by judhenaosa0
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Comment: C: How to exclude some of breast cancer subtypes just by looking at gene expressio
... Hi. I shared the histogram and the overlap normal curve: data.table$y <- NULL row.names(data.table) <- data.table$Name data.table$Name <- NULL head(data.table) all.data <- unlist(data.table) hist(all.data,probability = T,ylim = c(0,0.12)) curve(dnorm(x,me ...
written 9 months ago by judhenaosa0
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Comment: C: How to exclude some of breast cancer subtypes just by looking at gene expressio
... Thanks for your help. I have an expression matrix as I show you n the next table. Name y GAPDH PGK1 BRACA1 PPIA Sample_1 1 -3.862188587 4.0051135284 5.3343408926 -1.5971560514 Sample_2 1 -4.3324333866 4.7910247638 6.9940989042 1.3791251185 Sample_3 1 -5 ...
written 9 months ago by judhenaosa0
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Comment: C: How to exclude some of breast cancer subtypes just by looking at gene expressio
... Hi, Thanks a lot, this has been truly useful. Notwithstanding, I have a theoretical question. Why is SubType the response variable? Is not suppose that variable is a factor (explanatory variable) and the expression values the response variable? Thanks for your collaboration. Best regards, Juan ...
written 10 months ago by judhenaosa0
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Comment: A: How To Install A Specific Cdf Package For Use In Bioconductor
... Hi, I tried to follow the example using the file GPL8715_Hs133P_Hs_UG_8.cdf. But when I try to normalize using the rma method, I get the next error: Error in getCdfInfo(object) : Could not obtain CDF environment, problems encountered: Specified environment does not contain GPL8715Hs133PHsUG8cdf ...
written 16 months ago by judhenaosa0

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