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Dear developer,
I would like to ask whether Xron can be used for base-calling of RNA-sequencing data obtained from RNA004 direct RNA-Seq runs. Data are either *.fast5 or *.pod5.
Thanks and best
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Hi, I'm trying to perform a m6a (on RNA) detection using tombo (and some other softwares).
I'm having trouble performing the resquiggle, I've read many of the other opened issues and I can't find a …
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Thank you for this amazing resource. On the AWS landing page it sounds like there are tissue samples processed but I only seem able to find cell lines sequenced?
Apologies if this is just me missun…
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Hi,
Does the capTEs suitable for nanopore direct rna sequencing data?
Thanks,
Bai
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We are using the scripts which you published on this paper and repeat the m6A calling using EpiNano, with the datasets published on Nature Communication (2019) including Curlcakes and yeast datasets.
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TTT16 updated
1 month ago
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So, I performed direct RNA sequencing on nanopore and got fast5 files for them. When I do tombo resquiggle, should me reference fasta file by DNA or RNA sequence in fasta?
For instance, if I sequen…
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Hi, I am working with Nanopore direct-RNA sequencing and found your tools really useful. However, while I was trying to use your BamSlam script to generate some summaries and figures for the alignment…
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Hello,
I am interested in direct-RNAseq data analysis. In the introduction, you have specified the used sequencing kit as "SQK-LSK108", which I believe is a cDNA or gDNA kit and not a dRNA kit. Cou…
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Hello,
Question about 'RNA sequencing assay' (OBI:0001177) and 'RNA-seq assay' (OBI:0001271). In OBI, 'RNA-seq assay' is a subclass of 'RNA sequencing assay'. Are there examples of assays that fal…
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I really like your preprint and I would love to use it for direct RNA sequencing.
Do you happen to work on adjusting the UNCALLED for direct RNA sequencing? Given that an accurate RNA k-mer model is …