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I think "-uf" might be wrong for the data we're using. the sequences are not always on the coding strand.
nreid updated
2 years ago
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Hi there,
Just wondering if you have thoughts on using tools to orient bulk reads before alignment with minimap2. From what I understand in the FLAMES documentation, reads from the FASTQ are direct…
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Have you tested lumpy performance with BAMs generated by minimap2? Is it compatible?
Thanks
Rafa
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hello everyone.
I am trying to read a paf file that I obtained using minimap2 but can only get a data frame full of NA
here is the command I used for minimap2.
minimap2 -ax map-ont --second…
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I encountered the following error related to SIMD library, while building a docker image with the current version of Dockerfile.
```[shell]
[+] Building 4.0s (9/11) …
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Hi,
We are looking to optimize the polishing step for reconstructing a plant genome using PacBio HiFi reads (Q30). Specifically, we tested both NextPolish and NextPolish2, followed by a variant cal…
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Hi i am running mity via docker but encountered with some bam error, could not able to rectify it, actually i was trying to find out INDELS for long read ONT generated data, using minimap2 aligned bam…
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Hello,
I am having trouble to run Ra on a cluster. I tried on two different clusters, and get this:
`[Ra::run] preconstruction overlap stage
[Ra::run] error: unable to run minimap2!
`
But minim…
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Hi,
Have you tried to replace bwa with minimap2?
Michal
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Hi, Weijie
I found the `wgatools` will stop after raise an error with minimap2 PAF `minimap2 -x asm20 --eqx ref.fa query.fa > query.paf`.
```bash
RROR CSV deserialize error by: CSV error: recor…
baozg updated
6 months ago