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Hi!
I am doing research using RNA-Seq at my university.
I was interested in this rMATS analysis and actually performed it.
This is the code I used
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python rmats.py --b1…
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Hello,I stalled rmats 4.2.0 successfully and use it with my data;
However,when I cat summary.txt, there is zero significant results without errors.
EventType EventTypeDescription TotalEventsJC Tot…
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It seems all reads have been filtered out and it's strange to observe some negative numbers in section of `read outcome totals across all BAMs`.
Log:
```
gtf: 26.3849499226
There are 60669 dis…
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Hi,
I am testing REDItools3, which I assume it has similar input requirements as its predecessors. I am running the folowing
python -m reditools analyze -t 20 -s 0 -mrl 50 -os 5 -q 20 -bq 20 -mb…
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In rMATs , when a summary.txt file is produced, what is the “total events” and based on what criteria are the “SigEventsJCSample1/2HigherInclusion” selected?
If the answer is, as per website, sign…
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Hi, friend
I have successfully run rMATs pipeline and everything seems OK, but I am counfused with the results.
1. My RNA data is Illumina PE 150 reads from tumor sample and normal sample.
2. My…
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Hi,
I use the Leafcutter to analyze a batch of samples. One of the samples has a splice event in the region: chr7:116411552-116415165, and the other samples are negative. But I can't find any splic…
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Hi,
Recently I'm trying to use EVM to annotate my genome. Since I'm a freshman for gene structure annotation, I didn't get any alternative splicing events from the final GFF. I searched for the manua…
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Hello.
My results are only table headers that I have tried to use --variable-read-length, and I don't know how other methods that run the source code I haven't found. Can you help me?
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Hi!
I have some questions about rmats. I would like get some suggstions from you. I am very grateful!
1. I only want to know all the AS event in every sample, not the difference AS event between…