User: adeler001

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adeler0010
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Posts by adeler001

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Comment: C: How to create manhattan plot with DESeq2
... Hello Michael . I did not use tximport/tximeta. I used featurecounts to get the read counts, I dont have the chromosome positions , how can i include that information ? ...
written 28 days ago by adeler0010
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Comment: C: How to create manhattan plot with DESeq2
... hello Michael thanks for answering my question, I looked at the 1st link you gave , it doesn't have a section on manhattan plots ...
written 29 days ago by adeler0010
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How to create manhattan plot with DESeq2
... I used DESeq2 to do my Differential gene expression analysis for my RNA seq data. I would like to know what script I can use to generate a manhattan plot where I have the chromosome position on the x axis and p values on the y axis . Thanks ...
deseq2 rna seq mahattan plot written 29 days ago by adeler0010 • updated 29 days ago by Michael Love26k
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51 views DESeq2 RNAseq differential expression analysis
... Hello Im trying to do an RNA seq differential expression analysis using DESeq2 by doing a likelihood ratio test The DESeq2 manual states " The likelihood ratio test can be performed by ...providing a reduced design formula, e.g. one in which a number of terms from design(dds) are removed" They t ...
deseq2 rna seq wald test likelihood ratio written 9 weeks ago by adeler0010 • updated 9 weeks ago by Michael Love26k
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Comment: C: DESeq2 unpaired RNAseq analysis
... ok thanks for answering ...
written 9 weeks ago by adeler0010
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Comment: C: DESeq2 unpaired RNAseq analysis
... ok thanks for answering ...
written 9 weeks ago by adeler0010
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DESeq2 RNAseq differential expression analysis
... Hello I'm doing an rna seq differential expression analysis using DESeq2 I did the read counting using **FeatureCount** but didn't normalize the read counts after. I just wanted to confirm if I have interpreted the DESeq2 manual statement correctly ? Is it saying I don't need to write a command ...
rnaseq deseq2 written 9 weeks ago by adeler0010 • updated 9 weeks ago by Michael Love26k
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DESeq2 unpaired RNAseq analysis
... Hello I'm new to coding on Rstudio. I'm doing a RNA seq analysis to test for differential gene expression using deseq2, by using unpaired samples. I just wanted to know if I altered the following script template correctly to indicate the following : 1) the analysis will be using unpaired samp ...
rnaseq deseq2 written 10 weeks ago by adeler0010 • updated 10 weeks ago by Michael Love26k
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Need help cprrecting overlappinge genes on valcano plot
... I'm doing an RNA seq analysis and I'm trying to show my results using a volcano plot on R studio. I used the the follow script to make my volcano plot on R studio: # Import count table countdata <- read.table("family_13_01_RNA-seq.counts_fixed.txt", header=TRUE, row.names=1) # ...
volcano plot rna seq written 11 weeks ago by adeler0010 • updated 11 weeks ago by Michael Love26k

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