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### Ask away!
The PCR-cDNA barcoding kit, incorporates UMIs with the strand switching primer into the strands which are then sequenced. Is there a point in this pipeline that takes these UMIs into ac…
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Hi,
Thank you for your work.
I noticed this is trained on cDNA data, while the tokeniser seems to use RNA vocab (https://github.com/oxpig/CaLM/blob/main/calm/alphabet.py)
Can you please clar…
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### Suggestion Description
This is more of a question at this point. CDNA3 MI300x supports up to 8 x partitions per card via SR-IOV. Can `k8s-device-plugin`
- detect the partitions?
- allocate the…
lohbe updated
2 months ago
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Hi,
I need help with two problems I'm having with your tool on my M1 Mac. Here's what's going on:
Problem with Minimap2: I intended to use Minimap2. When i start the tool using minimap2, it gave…
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Hi,
I got the following error when I ran nanopolish eventalign. There isn't any other error message. I have run nanopolish eventalign with my other samples and it was fine.
**/var/spool/slurm/d…
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samtools 1.17 (using htslib 1.18)
OS: Linux 3.10.0-1160.119.1.el7.x86_64
machine architecture: x86_64
compiler: gcc (GCC) 4.8.5 20150623 (Red Hat 4.8.5-44)
#### Please specify the steps taken…
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Hello,
I can build index for Mus_musculus.GRCm38.dna_sm.toplevel.fa, but when build for Mus_musculus.GRCm38.cdna.all.fa, there is a bug:
"rsem-extract-reference-transcripts Mus_musculus.GRCm38.c…
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Thank you for creating such a useful tool! I am interested in analyzing RNA-seq data, sequenced with Nanopore's PromethION, using IRFinder-S. The raw fastq formatted data from Nanopore are stored as a…
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Entity picklist expressions evaluate in Sample protocols. Move list value population from JS to the Entity.
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Hello,
I'd like to request a New Term: "oligo-dT primed Total RNA".
* Editor preferred term: "oligo-dT primed Total RNA".
* Alternative terms: oligo-dT primed cDNA -or- cDNA arising from oligo-…