All Questions
5 questions
0
votes
1
answer
351
views
HISAT2: RNA strandedness
My library is unstranded and the code I'm trying to use is this:
...
0
votes
1
answer
79
views
Is loss/gain of function reflected in RNA-seq transcript counts?
Do LoF/GoF transcripts count toward the RNA-seq TPM count? Or would these LoF/GoF transcripts only be detected by isoform quantification?
- 131
2
votes
2
answers
40
views
Is there a computational tool or possibility to identify mRNA isoforms from the count matrix of a bulk RNA sequencing dataset?
I have the counts matrix of an RNA sequencing dataset of fibroblasts and I wish to identify isoforms of a particular gene of interest in it. Can anyone please hint me on a bioinformatics method to ...
- 547
1
vote
0
answers
151
views
How to correctly parallelise RSeQC scripts with GNU parallel?
I have a .bam, as ouput from STAR aligner, from which I need to extract some info using RSeQC while using all the computational resources available to increase ...
- 21
6
votes
2
answers
5k
views
5' and 3' bias in Rna-seq data
I'm working with rna-seq samples. I see 5' bias and also 3' bias in the per-base sequence content plot. From this link I see that the bias at the start of the sequences appears to be the result of ...
- 1,272