93 results in 0.0028 seconds.
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CummeRbund: Warnings, not averaging correct samples together
Hi, I'm reanalyzing some data from a few years ago. When I put it back into readCufflinks() I get the following warnings after some other problem solving:... -
Cuffset number of genes too high
Hi,
So I'm implementing a pretty standard tuxedo pipeline on paired-end mouse data. I went along as follows.
Using the... -
Any advanced CummeRbund tutorials out there?
Any advanced CummeRbund tutorials out there? I've only found tutorials that cover the basics in the manual. I'm looking for something more detailed... -
Help with Cuffdiff output and CummeRbund
Dear community,
I have RNA-seq data of 3 different samples, mock, condition 1 and condition 2. I have used the tuxedo suite for my analysis.... -
CummeRbund - show individual k-means cluster plots
I'm using CummeRbund to visualize some RNA-Seq data. I can show expression patterns with this:
...Code:ic9 <- csCluster(sigGenes, k=9)
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cummeRbund Error: This data.table install has not detected OpenMP support
Hello everyone,
I have been using R package "cummeRbund" for a while now (with not much of knowledge though), however, its until very... -
CummeRbund Expression Bar Plot
Hello,
I am running CummeRbund in R and I'm having an issue when it comes to the expressionBarPlot function.
I ran the... -
CummeRbund, extracting only one chromosome
So I'm new to R and want to create a scatterplot with cummeRbund that has only chr8 plots.
>pdf(file="practice_8.pdf")
...Last edited by ajsn6c; 06-21-2016, 04:43 PM. -
Modify cummeRbund plots in R studio: color, error bar width
Hello everyone,
I would like to reduce the horizontal length of the whiskers on the error bars on my expression plots, modify the color... -
CummeRbund - PCA
Hello,
I'm using the PCA plot function implemented in the CummeRbund package. The package is very user-friendly, however, I can't find... -
Error in CummeRbund
Hi everyone,
I am new to R and cummeRbund, but I would like to share with you a problem that occurred to me.
I'm tryin to build...Last edited by gasteropode; 12-31-2015, 01:48 AM. -
cummeRbund readCufflinks Error in sqliteSendQuery
Dear All,
When using library cummeRbund with readCufflinks, I got errors:
Creating database /home/NGS/diff_out/cuffData.db... -
Cummerbund Standard Error, Gene Plot Visual Tweaking
Can I extract the expression level information and standard error for my samples from cummerbund in R studio? I'd like to be able to generate my own gene... -
Cuffmerge loses gene_id annotation
Dear forum readers,
I'm following the tophat2/cufflinks/cuffmerge/cuffdiff/cummeRbund workflow for my human RNA-seq data analysis. I'm... -
correlation analysis on gene basis
hello every one,
as i am learning RNA seq analysis so can anyone told m how to calculate correlation among 3 biological replicates on...
