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This issue can serve as a placeholder for use cases for sourmash/MinHash more generally.
Stuff we already have implemented:
* basic MinHash comparisons etc
* metagenome taxonomy breakdown
* st…
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Hi @tseemann I observed an inconsistency when annotating a genome with prokka.
First I downloaded the M. ulcerans Agy99 genome ( fasta and genebank format).
I performed annotation on the fasta…
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> Especially as input files and number of studies gets large, it would be useful if rare metal could use tabix from the results and covariance matrices to select only the parts of the genome it needs …
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I am trying to split a large BAM file into smaller bam files by tags that contain a cellular barcode. Bamtools is able to generate the files, but is unable to write the sequences into them.
I used th…
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The chromosome size is quite large for some genomes. The tbi indexing of VCF files is not working for them and people use csi indexing instead. But the Strelka2 seems not accept CSI index file with th…
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Hello, database docs said:
> The signatures were calculated with a scaled of 1000, which robustly supports searches for ~10kb or larger matches.
>
I want to know how "~10kb" were estimated, and d…
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As an idea for a dataset with a "story", we could use mapping of diseases in dog breeds, which can be done with a simple filtering for fixed mutations in the disease group (kind of like a very simple …
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Dear EzAAI team,
I am wondering whehter it is possible to provide an options when computing many pairs, like in fastANI, a list of query database, and a list of reference database then compare each…
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_Originally posted by @jamesc99 in https://github.com/PacificBiosciences/sawfish/issues/2#issuecomment-2310789812_
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Hi,
after running Sawfish v0.12.2, the previous error in #…
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I aligned two genomes of the same genus (divergence \~5-10%;parameter: -p 80) . I got a very large insertion/deletion (\~ 2M bp, CIGAR: 1974305I1938457D) in an alignment, which is absent in the result…