SUPPA

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A problem occur in step 'psiPerEvent'

13

Hi developer！ Glad to meet such a convenience tool for AS! I have a probem in psiPerEvent: When I type `suppa.py psiPerEvent ` It shows that `ERROR:psiCalculator:transcript rna-XM_025824875.2 not found...

Tomcxf

Wondering will SUPPA generate different results while using the same file?

1

Hi there, I'm wondering will SUPPA generate different results while using the same TPM files? Which I mean is that will SUPPA detect different ARS events based on the same...

LitingKu

DiffSplice significant results have dpsi values of 0

5

Hi, I would like to thank you for your continued support and effort in the development of suppa2. I recently performed an analysis between conditions (10 replicates per condition), and...

marypiper

According to the code of this member function of class `ALTR` in `lib/event.py`, https://github.com/comprna/SUPPA/blob/1c0ad912b71c29ce233be4b7269c4a44e62e751d/lib/event.py#L309-L319 Since `neg2 > coord3` is guaranteed at L315, the right terminal exon of `transcript` lies to...

lzx325

Problems replicating TRA2 tutorial results

3

Dear developers, first of all, thanks for this amazing tool! I'm writing this because I couldn't replicate the TRA2 results from the tutorial. I cloned SUPPA (`1c0ad91`) and built its...

avilaHugo

diffSplice Classic doesn't consider dPSI cutoff

1

Hello, first of all, thanks for your software. The dPSI cutoff is not considered in the classic method of diffSplice, is it a wanted behaviour? In case, it would be...

CloXD

Problems with diffsplice command

17

Hi, i know that is a recurrent problems here but i didn't find a solution I tried to run difSplice for isoforms, using python3.7 and files generated previously with python3.7...

antgomo

Using SUPPA2 with PacBio sequencing

6

Hi, thanks in advance for taking the time to answer this question. What are the constraints of using SUPPA with PacBio sequencing data if any? Thanks again

aa9gj

When calculating the cluster, the following prompt appears, and only a 2kb result file is generated. Is this a data problem? Still reporting an error?

2

Running OPTICS clustering...100% Number of clustered events: 0/19 (0.000000%) Impossible to calculate silhouette score. Only 1 cluster group identified. When calculating the cluster, the following prompt appears, and only a...

ouyang-lang

simplify event ids for cross referencing in genome browser

3

Hi @EduEyras, I am trying out SUPPA for the first time and so far I am a big fan, particularly for the interpretability of the results. Something I find slightly...

mparker2