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Originally I expected samples to be numbered (e.g. S1, S2...) in an order that reflects the original files' names (which in my case are SRA accessions). But I found a bin associated with a sample numb…
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Hello,
We would like to add the Ultima Genomics platform to the list of allowed platforms for the PL tag in SAM.
Reference [here](https://www.biorxiv.org/content/10.1101/2022.05.29.493900v1).
I …
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Hi,
I currently have 70x of Illumina-corrected ONT reads (N50=22kb) with an estimated error rate of 1.6% across the genome. I also have Illumina reads (151bp PE) for the parents. As reported in th…
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I'm wondering if it's possible to do a reverse lookup using the index file generated by tabix. I have the byte range from HTTP Request header and I want to deduce chr:beginPos-endPos from this range.
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Hello,
I am an absolute beginner.I am planning to try canu(v.2.2) using the B.taurus dataset to do trio binning assembly.
There are Illumina short-read sequencing pair-end files for parents (Angus…
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Hello,
I have ONT reads that are mostly uncharacterized. Then I have two questions:
How is it possible to set kmer size for trio-binning, and, is it possible to use the -c (homopolymer compressi…
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Can you help me with this error?
Error in rule run_checkm_lineage_wf:
jobid: 145
output: jut/binning/DASTool/checkm/completeness.tsv, jut/binning/DASTool/checkm/storage/tree/concatenated.…
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Hello!
I hope you are well. I am trying to do a hybrid metagenome assembly using an Illumina 2x150bp library and an ONT library. I am unsure why, but the assembly consistently fails on step 3, thr…
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Hello,
I have a trio dataset with 30x coverage of ONT long reads and 30x coverage of pacbio HIFI data for all three samples in the trio.
Is it possible to bin the F1 ONT reads and/or F1 HIFI read…
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Hi, many thanks for developing Canu.
My question is how do I get a separate gkpStore database by performing the following step: load read into read database to get gkpStore.
We are using canu v1…