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it would be nice to be able to use the next release of khmer with the current version of sourmash, and I think right now sourmash depends on khmer.load_nodegraph which doesn't exist in master. maybe w…
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Hi,
I have found that `sourmash sig describe` returns an error if the signature file is located in a subdirectory that contains the string "sourmash". I am running sourmash version 4.8.5.
## Set…
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over in In https://github.com/sourmash-bio/sourmash_plugin_branchwater/pull/213, I tried to describe standalone manifests and their benefits for lazy loading. I wrote:
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> There are various pla…
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per https://github.com/sourmash-bio/sourmash/issues/1833#issuecomment-1033860432, it seems like we should investigate this and figure out if it works, and if so, how well.
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Firstly, I am in AWE of your work, and I hope to marry it with https://skewdb.org/ at my earliest convenience. This is database of GC skews of bacterial and archaeal chromosomes.
I downloaded http…
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should be intersect_bp, I think? to match sourmash => multiply by scaled.
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This is an expected limitation in sourmash when working with signatures in Python data structures. Python dictionaries are restricted in the amount of data they can hold, regardless of available RAM.
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over in https://github.com/ctb/2024-calc-full-gather/ I have implemented a simple script that takes fastgather output (from https://github.com/sourmash-bio/sourmash_plugin_branchwater/) and turns it i…
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Hi dev team,
I suggested that the branch water web tool support searching with sourmash signatures alongside the FASTA files, and @luizirber mentioned we would need to create PR for this feature he…