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I using the latest kmc code but i can't count kmer on fastq file. It work on fasta
```
$cat r1_test.fq
@0|Chromosome|4051100|4051286/2 BX:Z:CGACACGGTTTGGGCC
AAACCCAACCAC
+
FFFFFFFFFFFF
$kmc …
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https://hackmd.io/9ORFRJGaTOiOdEAY-Aih2A?view
---
# Running k-mer analyses with sourmash - open lab / Sat, Jul 20, 2024 / STAMPS 2024
Suggestion for open lab:
* run the commands below on the…
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Hello,
I came across an odd bug. I created an index for mm39. I then generated a k-mer sequence from [mm39](https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_000001635.27/) chr19:
'GGGTTAGGGTTAGGGT…
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It's unclear to me what is the difference betwen `MinimizerQueue` and `ImplicitMinimizerQueue`.
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Hello! I am working on replicating some (amazing) work from Taylor's [IBD project](https://www.biorxiv.org/content/10.1101/2022.06.30.498290v1.full).
I have signatures from `sourmash sketch dna` of…
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My database contains lots of genomes, over 15k bacterial and all fungi from genbank, so it is unlikely for a result with 0 overlap. Also I had already run Clark and Kaiju and both return good results.…
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Dear developers,
I would like to run snapper on a set of reference contigs (not whole genomes). I have native and wildtype data.
```
single_to_multi_fast5 -i "${nativeFAST5}_single" -s "${nativeF…
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I was seeking a similar kind of "one number measure" to unicity distance, but for _taxonomic_ incoherency, and I decided to try out k-mer Shannon entropy - [link](https://en.wikipedia.org/wiki/Entropy…
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Hi,
Is it possible to extract the k-mer and/or minimizer sequences assigned to a specific taxon from a Kraken2 database file?
Thanks,
-Bob
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In Part 2, for Question 5, my Barplot for E.Coli Under-represented K-mers seems to be missing some of the K-mer names on my x-axis.