Hello all,
I have beeing searching the internet but I have not found what I need to know. Let's say that I have 3 or more bam files representing...
27 results in 0.0029 seconds.
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Combining multiple bams without losing library size information?
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Hisat2 vs Tophat2 variation between tech reps
I have a question regarding the variability of FPKM I am seeing between technical replicates in the Hisat2, stringtie pipeline. When I plot technical... -
is this a technical replicate or biological replicate
i know that biological replicate is one taken from different organism/sample while technical replicate is one from same organism/sample.
... -
Generating heat maps with CummeRbund
Hi all! I am trying to generate heat maps between two treatments (n=3, each). I would like to do the following:
Generate a heat map with... -
filter for sequences shared among replicates
Hi all,
I have small RNA sequence data for 5 treatment groups with 4 replicates each. For each replicate, I want to filter the read lists... -
Replicates in RNA-Seq experiment
Dear all,
This question is somehow linked to my previous thread http://seqanswers.com/forums/showthread.php?t=49153 . I am analyzing RNA-Seq...Last edited by keysoon; 01-15-2015, 06:02 AM. -
EdgeR confusion with no replicates
I have four samples(no replicates) in a merged raw counts file from HTSeq. I'm confused on how to create the DGEList and counts via rnbinomial in order... -
CummeRbund scatter plots of two replicates
Is there a way to get a scatter plot for two replicates of the same condition?
The below command will give us the scatter plot for Condition1... -
reps and analysis
Hi all!
I am doing a 16S amplicon analysis on soil samples with 5 different treatments.
I have 9 replicates per sample.
I got... -
statistical analysis of 454 bisulfite sequence data - small sample size
Hello everyone,
I am trying to figure out how to analyse some bisulfite sequencing data that I have and I am hoping that someone will have... -
Low number of replicates DESeq
Hi all,
I am using DESeq for DGE analysis.
I have STRANDED RNA-Seq data for 4 developmental stages with no replicates. ... -
Experimental Design Given One Cell Line
We are interested in examining the effects of four different drug compounds (with 1 being a "control" in the form of a growth factor) on differential... -
Tophat-Cufflinks-Cuffdiff: different libraries used as replicates
Hi all,
I was wondering whether you can offer me some advice. I have 2 sets of RNA-seq libraries (plus and minus conditions per set -... -
Sources of error in NGS and importance of replicates
Sources of error in NGS and importance of replicates. Good article for NGS service providers to propagate !
http://www.nature.com/nrg/... -
Chips-seq replicates and motif discovery: how to deal with the merged peaks?
I have chip-seq triplicate (3 treatment, 3 controls, each of the 6 with their input control). I have identified the peaks using macs14 for each sample...
