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I am new...can someone help me to solve this error---Thank you
(base) [mmolla@node304 ~]$ dorado basecaller /gpfs2/scratch/mmolla/Pod*.pod5 dna_r10.4.1_e8.2_400bps_hac@v4.3.0 --modified-bases-models …
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Any plan to add `dorado` to `--basecaller`? Thanks.
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Hello,
I ran Dorado on an RNA002 dataset to compare the output with Guppy but observed that I get the same results in terms of read length distributions, regardless of whether I use the --no-trim o…
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# Issue Report
Hi, I was wondering what default filtering is in place for the basecaller and aligner. Would there be the need to do extra filtering such as a samtools -F3844 filtering scheme to fil…
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Hi,
On nanopore data, is it possible to use basecalled bam files (basecalled with Dorado) as input sample? (to remove the DCS)
Many thanks,
Selma.
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Hi @wdecoster I am interested in the pairwise identity between each read in two FASTQ both basecalled on the same FAST5 files but with different software, such as `Guppy` or `Dorado`. This work was …
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Hello,
We have noticed that the order of the flags matters when running Dorado, especially the `--modified-bases` option. We have seen this same behavior with previous versions as well as v0.2.1.
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Hello,
I was wondering if it would be possible to separately use the 4mC+5mC, and 6mA models go get all context modifications for all three from the sequencing data and ideally into the same BAM.
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# Issue Report
## Please describe the issue:
Is there a specific reason the fastq encoding changed?
Notepad++ tells me it is now UTF-16.
I am running into a lot of compatibility issues, especi…
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# Issue Report
## Please describe the issue:
The purpose of, and interaction between, the `--modified-bases` and `model` params are unclear, particularly as it pertains to the automatic model se…