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Here is what the nextflow version is currently outputting in a transXpress_results folder in the working directory of the pipeline execution (using rnaSPAdes as an example):
```
0226_Chattonella_sub…
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Hi there,
I recently asked our HPC cluster to install Pasa. I kept running into the following error:
* [Wed Sep 20 21:24:28 2023] Running CMD: cat ./trinity_combined/trinity_transcripts.fa.clean .…
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Hi there,
I as hoping someone could help me, I a**m trying to initialize my Trinotate sqlite database using this code:**
perl /home/ubuntu/miniconda3/envs/trinotate/bin/Trinotate Trinotate.sqlit…
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Hi!
Firstly thank you for the tool.
I try to use my gffcompare gtf output for my analysis. I have tried "/archive/yildize/alotaibi_lab/human_data/transdecoder/TransDecoder-TransDecoder-v5.5.0/util/g…
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Hi Brian,
This isn't so much an issue as a question about how TransDecoder works. I have received a transcriptome assembled from a combination of short-read and long-read sequencing using rnaSPAdes…
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Currently when I ask for metadata or for logs, I get something like:
```
{
"calls": {
"annotate_de_novo.transdecoder": [
{
"stderr": "/pipelines/cromwell_1/cromwell-execution…
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Hello,
I downloaded the newest release of TransDecoder-v.5.7.0. I ran the command:
` ./TransDecoder.LongOrfs -t ~/transcriptome_data/final_assemblies/abdomin.clean.mrna.fa`
However, I receive the…
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Hello Brain,
Why do I get this error?
I tried creating my own database as well as downloading from the resources. With both it gives the same error. I thought it to be version incompatibility bu…
depac updated
4 years ago
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Hi there,
I am getting the following error when using TransDecoder.LongOrfs and I am not sure how to interpret the error nor how troubleshoot it:
-first extracting base frequencies, we'll need t…
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Hi Brian,
I am using TransDecoder on my de novo assembled transcriptome, which has been assembled using illumina short-reads and iso-seq long-reads in rnaSPAdes.
Script: TransDecoder.LongOrfs -…