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### Description of the bug
Hello,
I'm running this pipeline on the `star_salmon/salmon.merged.gene_counts.tsv` output from nf-core/rnaseq and am having an issue with the `PLOT_EXPLORATORY` step, w…
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I use the `estimatePhangornTreeAll()` function to get the tree file for all my sequences.
Attached the trees I am using here.
[all_cne_Phangorn_tree.txt](https://github.com/user-attachments/files/1…
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Hi,
I am trying to run this on my own dataset. I git cloned this repo yesterday and in the `config.yaml `there is a qnorm file that wasn't mentioned in the [methods](https://abc-enhancer-gene-predi…
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### Operating System
Ubuntu 22.04
### Other Linux
_No response_
### Workflow Version
Nextflow version version 23.10.1, build 5891
### Workflow Execution
Command line
### EPI2ME Version
wf-sin…
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https://mp.weixin.qq.com/s/5cyuJIw269rIqqd8JtEIdg
ixxmu updated
2 months ago
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Dear Oliver Tam,
I am trying to use TElocal tool to find to find transposable elements within my sequence alignments.
I have run the following command :
TElocal --sortByPos --mode uniq -b SEQ400…
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### Context
We are encountering a new issue with resurveying requested experiments on the staging environment.
First we queued a large batch of requested experiments. These failed with miscellan…
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Hi all,
I have the encoding error and I have no idea, where it is coming from, as I should not have any unusual symbols.
```shell
Building DAG of jobs...
Using shell: /usr/bin/bash
Provided c…
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Hi,
We ran PSI-sigma on Danio_rerio using a gtf -file from Ensembl (Danio_rerio.GRCz11.110.chr.sorted.gtf).
We are confused by the Event Type that says 'R' or 'S' or 'W'. What does this mean?
(Ru…
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### Description of the bug
When running zebrafish samples in rnaseq pipeline on 3.13.2, failure occurs at gtf_filter job. Failure does not occur with all same settings on 3.12.0.
### Command used an…