How to check if there is 3' bias
How can I check if there is 3' bias in a set of RNA-Seq data?
rna-seq
• 1,292 views
•
link
updated
by
Ram
4.5K
• |
written
by
felipead66
12
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Question for 3 prime bias in rna short read and long read (illumina, ont, pacbio)
written by shinyjj 7Hello, I know rna seq in general has 3 prime bias. When I say rna-seq, I am talking about illumina, oxford nanopore, and pacBio. Here …
-
Realistic RNA-seq using Polyester + Differences between Hexamer bias and positional bias?
written by shinyjj 7Hi all, Can somebody explain the difference between hexamer bias and positional bias in RNA short reads? I am using polyester to generate realistic RNA-seq …
-
gene body coverage interpretation
written by felipead66 12In search for possible 3'bias I have run gene_body_coverage.py and come up with a plot that assimilates the magenta plot in this example: ![enter image …
-
RNA Seq data distribution
written by felipead66 12When I have RNA seq data, analyzed with DESEq2, is it necessary to do violin plots in order to check the distribution and intensities of …
-
RNA seq library size
written by felipead66 12I apologize for the silly question, but how do I find the library size of rna seq data if I have the count table? The …
-
How to better find and select the appropriate data set for my research?
written by utsafar 8I am developing a database for single-copy genes. To test my methods and parameters I need some RNA-Seq data sets in Arabidopsis. I wonder how …
-
How can I check for library composition bias RNA-seq data
written by debitboro 27Hi Biostars, I'm looking for a method by which I can check the library composition bias in my RNA-seq data ? thanks in advance
-
Circos and RNA-Seq Data
written by obbedio 0Good evening, my name is Luigi, I’m a PhD Student with the passion of Bioinformatic, and I’m working on several RNA-Seq data. I recently discovered …
-
Which software do you use for RNA-seq data quality control?
written by Christian 307I am specifically interested in (RNA-seq specific) quality metrics not delivered by FastQC, for example 5'-3' coverage bias of transcripts, percentage of reads mapping to …
-
Chromosome Enrichment
written by Ying W 426<p>I have NGS data (DNAse seq, chip-seq, rna-seq) and I was wondering if there was a quick way to see if there seemed to be …
Use RSeQC: http://rseqc.sourceforge.net/#genebody-coverage-py
Thank you for your reply. So if I see a peak in the 3' end, that would suggest a 3' bias?