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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.
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## Expected Behavior
Summary: Running linclust or clust with a very big database leads to a heavy slowdown in the rescorediagonal part. Expected the job to continue much faster. It releases a warning…
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Thanks for developing the easy use software!
We found the genome size estimate of our arthropod assembly was quite dependent the max k-mer coverage . The genome size is 30% larger after increasing…
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Following up on a discussion I had with @nickp60 earlier on whether or not we should retune the `bbduk` parameters during trimming (given that we have some reads that look like adapter/empty sequence …
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I've been trying to get metalign up and running for a metagenomics project I'm working on. I originally realized when I cloned the github repository, the db_info.txt file was not present and was givin…
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Hi Mike,
Hope all is well with you
I'm revisiting our GenomeScope analyses with cleaner reads and was curious about a trend I see in many papers. As well as looking at other k-mer based assembly ev…
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[summary.txt](https://github.com/user-attachments/files/17161668/summary.txt)
Thank you so …
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> Hi - I was excited to see this upgrade as we use cutadapt extensively - it works great and can do things no other software of its kind can do, but is one of the slower components of our pipeline, so…
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INVERTED REPEATS
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To understand what is happening in my actual dataset, I generated perfect insilico reads (1M paired end (2x500k 125bp)) from a (bacterial) genome and used those as input for kraken2.
The confidenc…