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Hi
I'm trying to replicate some splice junctions in my long-read Kinnex data. Out of a total of 115 splice junctions, I managed to replicate about 100 from quantification obtained via the isoseq/SQ…
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Hi, I'm looking at a transcript with a shorter an longer version of an exon.
I was wondering how you count reads for those peaks?
Like reads that map partially to the shorter exon but fully to t…
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Hi,
1. I have Illummin R1 and R2 of RNA-Seq. Do I need to provide `--stranded`? If yes, how can I find it out?
2. If I ran Trinity on the cluster to speed up the runtime. Would it be enough to provi…
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I realized that I will be working with a very large number of samples representing data from over 20 conditions. The paper mentions - "PsiCLASS is designed to leverage the gene information across samp…
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Hello, thanks so much for a great package! I wanted to try running TACCO with method as 'RCTD', however I am running into issues. Specifically, as I understand it, RCTD is now part of 'spacexr' packag…
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Hi,
I am getting a errror "scipy.sparse.linalg.eigen.arpack.arpack.ArpackNoConvergence: ARPACK error -1: No convergence (77651 iterations, 66/100 eigenvectors converged)" when I rerun a one cluster…
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Hi all!
I am trying to combine the files below:
1. `masked.A.gff` from **directly runing AUGUSTUS with genome file** and converting by `augustus_GFF3_to_EVM_GFF3.pl`;
2. `augustus.hints.B.gtf` fr…
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I have Implemented Neoguardrails in Retrieval QA chain with llama2 model but it is giving error
My code:
```
MODEL_TYPE=GPT4All
MODEL_PATH=r'C:\Users\komal\Desktop\mages\chatbot\llama-2-7b-ch…
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Hello PASA team!
I have managed to run PASA in a small amount of my data.
I had lots or problems with the whole genome, and I believe this is because my organism of study has a whole genome dupli…
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I have ran trinity based fusion transcript denovo assembly, but I am wondering is there a way to identify the fusion break point within this transcript sequence? In another words, if I have a fusion t…