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Dear rMATs team,
I used rMATS-turbo using FASTQ files for the detection of differential alternative splicing. The FASTQ file had the standard Illumina adaptor for paired-end sequencing. I did not t…
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How to keep channel state during the splicing process?
Several alternatives:
- Add a few fields (new struct member to `channel.pending_splice`), and keep splicing state there (items such as new ca…
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Hello,
I'm analysing single-cell full-length RNA sequencing data. I would like to perform an analysis on alternative splicing exons, which has been mentioned multiple times in your research group's…
weib3 updated
2 months ago
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First and foremost, I would like to thank you for developing the fantastic DIA-NN tool.
I am currently working on a project where I aim to distinguish and quantify isoforms produced by alternative …
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I've seen a few issues posted here that describe lots of alternative first and alternative last events. These could simply be due to a noisy reference gtf. SUPPA makes it easy to limit this issue by d…
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Dear author,
There is an error in my running, how should i solved it?
```
ValueError: can only convert an array of size 1 to a Python scalar
running: ['miniconda3/envs/rMATS-long/bin/python', 'min…
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For example, in case of alternative splicing, exons shared between isoforms can either be 1) duplicated or 2) have multiple `Parent` values.
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I was just wondering if anyone knew which GTF file I should be using for my AS analysis.
I'm using mapped BAM files that I've aligned to a Glycine max reference genome.
However, If I'm doing alterna…
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Question 1
In my case of using rMATs. Too many MXE events in >80% samples (see attached). I also found most differentially expressed splicing events were MXE. Did these reasonable?
[AS_sample_number…
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Hello Team,
I have a basic query regarding the fastq reads , i don't have fastq reads in pairs, i have single fastq reads generated from direct rna sequencing(SQK-RNA002), is it possible to run DIC…