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Print how much is the data being reduced on each filtering step
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I have a suggestion that may be considered for a future version of sourmash. The current Minhash includes `hashes` and `abundances`. I propose adding an optional array called `positions`, which would …
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## Expected Behavior
Hello, when I run mmseq_gpu on my own data set, this error is reported. Is there any command restriction to prevent it from reporting such an error?
## Context
stdout:
sear…
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I am trying to train the model on my own data, which consists of 10-mers. Running part 2.2 with the following command:
> cd examples
>
> export KMER=10
> export TRAIN_FILE=PATH_TO_MY_10MER_FILE…
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The version 3.2.0 update says that the "possibility to store only k-mers in the database (no counters)" was implemented; however, I don't see any documentation on how to do this. I m building some ve…
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RSAT `position-analysis` detects k-mers that present any type of positional heterogeneity by running, for each k-mer, a chi-squared homogeneity test on its profile of counts per positional windows com…
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### Description of bug
If I ignore this warning "mimalloc: warning: unable to allocate aligned OS memory directly, fall back to over-allocation (16538140672 bytes, address: 0x7f31c5449000, alignment:…
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Hello!
I run:
**reckoner -genome 4500000000 -prefix ${p} -threads 128 -kmcmemory 900 -longkmer -verbose -reuse ${r1} ${r2}** …
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We just found some unusal genomes yesterday : like achromobacter_xylosoxidans_01/SAMN12335635 and acinetobacter_baylyi/SAMEA6124625... these genemes share almost no k-mer with others of the same speci…
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For canonical k mers, which ATCG combination is dropped?
For example, AAA, TTT, the kmc will dump all TTT counting to AAA or vice versa?
What's the rule? Thanks!