15 results in 0.0030 seconds.
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How to perform Pearson correlation coefficient calculations on RNA seq fold change va
I have gene expression data from different conditions from different studies. Instead of using the actual TPM values for Pearson Correlation coefficient...Last edited by Jayesh; 12-19-2019, 10:30 AM. -
Independent filtering by using fold change in DESeq2
Hi everyone,
Thanks for reading my post.
I know DESeq2 uses normalized mean count as independent filtering to improve the performance... -
Is Fold Change reliable? Does anyone use Characteristic Direction?
I'm taking a course on Coursera taught by Avi Ma'ayan. In one module, a member of his lab promotes an alternative method of determining differential... -
FoldChange calculation for two samples
Hi all,
I have two RNA-Seq samples. Detecting differential expressed genes for two samples is not possible. So, I want to calculate fold... -
Generating heat map from gene list and fold change between different groups
Dear all,
This is my first post in the forum. I need your assistance for generating heat map. since i have no knowledge of R-language and i have... -
log2FoldChange in DESeq2
Hello,
I have some trouble understanding how the log2FoldChange is calculated in DESeq2? Assuming that the full model is ~ AF + Condition, I'm... -
fold change for rna seq data without replicates
Hi all!
I have bacterial metatranscriptome from 12 samples but I don't have any biological replicates. They are a time serie (1 sample for each... -
DESeq2 with no replicates - strange results
Hi all,
I am using the DESeq2 package to analyse my RNA-Seq data set from the fruit fly (D. melanogaster). Unfortunately there are no replicates.... -
edgeR: fold change reported by exactTest for zero values of rna-seq
I have used the exact test in edgeR to compute the log fold changes. Here is the snippet:
...Code:d <- DGEList(counts=counts, group=samples$Condition)
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cuffdiff - cummerbund - fold change
Hi,
Is there a way that I can have a list of genes with expression fold change of X, instead of significant genes, using cummeRbund and cuffdiff?... -
Cufflinks - twofold increase in expression
How does one judge using the (RPKM values) what is a twofold change in expression?
For example, for a given gene, a value of 1.0 is background.... -
Pool cuffdiff output -exp.diff files?
The four DE output files isoform_, gene_, tss_groupd_ and cds_exp all address different levels of pooling matches between RNAseq reads and genome. ... -
CNV and Depth of coverage statistical method
Hi,
I have depth of coverage file generated by GATK having depth of coverage for 20 samples on each chromosome. I am interested in comparison between... -
A fold change heatmap for RNA seq analysis using CuffDiff and cummerbund
Hi friends,
I am an undergrad and was asked by a post doc to help analyze an Illumina Hi-seq single end RNA seq dataset. Needless to say...Last edited by devking; 11-08-2012, 10:17 AM. -
DESeq DiffExpress Vs. Fold Change
I don't understand the logic behind the data set DESeq provides when I perform the differential expression command. All of the numbers in the columns...
