User: rachel.kubik12

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Posts by rachel.kubik12

<prev • 4 results • page 1 of 1 • next >
70
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1
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48 follow
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PCA plot from read count matrix from RNA-Seq
... Hello! I have RNA-Seq data with 32 samples. I used Salmon to generate a read count matrix. I want to generate a PCA plot to look at the relationship between my samples. How do I use the read count matrix to perform the PCA analysis? Thanks! ...
pca rna-seq written 2.6 years ago by rachel.kubik12120 • updated 11 months ago by mayankkaashyap30
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0
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PC Plot troubles
... Hello! I am attempting to make a PC plot of my gene expression data. I have a read count matrix with my transcript IDs for the row names and the sample IDs as the column names. I have around 32 samples and over 22000 transcripts. I'm not sure the best way to go about this. I have been attempting it ...
R rna-seq written 2.6 years ago by rachel.kubik12120 • updated 2.6 years ago by Friederike5.7k
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Error when running edgeR
... Hello! I am running edgeR on my rna-seq data. I got my read counts from salmon quantification. I am able to read in my file but i am getting stuff on the DGEList function. I have been running the command y<-DGEList(counts=raw.data, group=Group) but i keep getting this error "Error ...
rna-seq written 2.6 years ago by rachel.kubik12120 • updated 14 months ago by Gordon Smyth1.6k
20
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16 follow
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RNA-Seq analysis using STAR and Salmon
... Hello! I am having some trouble figuring out how to use Salmon. I have around 30 different samples which I trimmed using bbmap then aligned them using STAR. I have all of the BAM files from this alignment. Should I merge them all before running Salmon or because they are all unique samples, do I ru ...
rna-seq written 2.7 years ago by rachel.kubik12120 • updated 2.7 years ago by aka001190

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