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Hi Eric
I am doing the rmats sashimi plot but was unable to get the splice junctions. If i am using A3SS.txt file so how to chose the coordinates. Can you please help..
![image](https://github…
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I've run into an issue with the likely misclassification of the strandedness of certain splice junctions. I'm working with a strand-specific RNA-Seq library for A. thaliana and generated a BAM supplem…
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I know this has been raised previously and closed for an older version, but can you share the method for creating gencode.comprehensive.splice.junctions.txt file please.
J-Lye updated
3 years ago
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**I have read the paper (https://doi.org/10.1038/s41467-020-15171-6)
and the manual (https://flair.readthedocs.io/en/latest/) and I still have a question about**
- align
- correct
- collapse
…
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```
output number of detected splice-junctions (exons, transcripts, etc..)
maybe also output all basic attributes of the read in genes, respectively
the expressed genes
```
Original issue reported …
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Hello,
I am getting the error "WARN: This sample has excessive splice junctions at unannotated locations. This may indicate the experiment is not actually RNA-Seq. Or it indicates the genome fasta …
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### Is there an existing issue for this?
- [X] I have searched the existing issues
### Have you loaded the SQANTI3.env conda environment?
- [X] I have loaded the SQANTI3.env conda environment
### …
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Hi Alex,
I am currently trying to do a splicing analysis of some SmartSeq single cell RNA-Seq data, aligned using StarSolo. During this, I have noticed a difference between the splice junction cou…
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I was running the drop demo as like this
drop demo
snakemake aberrantExpression --cores 30
But it got error like this
Finished job 13.
16 of 69 steps (23%) done
Loading required packag…
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I ran STAR ALIGNER 2 pass_mode with default parameters and got 3899739 splice junctions in Log.final.out file whereas there are only 179k splice sites in SJ.out.tab file. I wanted to know wether this …