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If you have an RNA sequence with U's, the U's will have to be converted to T's to get an alignment. Just something users might want to be aware of.
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When basecalling RNA2 data with dorado 0.5.3 it performs automatic read splitting via an open pore detection algorithm.
This algorithm is broken, as it not only detects actual open pores, but also…
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Hi,
I am trying to analyze RNA Modifications in Direct RNA-seq nanopore datasets. I performed the sequencing using rat cell line, so my reference is Rnor_6. I am trying to perform resquiggle on my F…
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I have tried to align the [cDNA reads]( http://s3.amazonaws.com/nanopore-human-wgs/rna/fastq/NA12878-cDNA_All_Guppy_3.2.6.fastq.gz) using minimap2 but only a small number of reads align to the human g…
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- [ ] Is the class an entity or a process? Is it an information entity about a material entity/process, or a pure information entity/process?
- [ ] Specify the ontology URI for class. Is there a hier…
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**the exact command you tried to run**
Feel free to leave any original paths, we don't have access to your system
srun -N 1 -n 1 bash -c "flair collapse -g /home/mbauer/genome/gencode.43.GRCh38.prim…
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Hello!
I have cDNA and direct RNA Nanopore reads which contain poly-A/poly-T sequences and adapters/barcodes.
A friend suggested me to use pychopper to remove those poly-A/poly-T sequences and a…
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Hi,
I tried to run poreplex on a minION run using the follwing command to basecall and demultiplex barcodes from direct RNA sequencing:
` poreplex -i 20191122_1000_MN24929_FAL01495_e9928ec8/fast5/ -…
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Depletion of the paternal gut microbiome alters sperm small RNAs and impacts offspring physiology and behavior in mice – Bethany A. Masson – Brain, Behavior, and Immunity
https://www.sciencedirect.…
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Project UUID: 116965f3-f094-4769-9d28-ae675c1b569c
Project Title: Single cell profiling of human induced dendritic cells generated by direct reprogramming of embryonic fibroblasts
Project Short Name…