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let kh_val(h)=y when put the key into hash?
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I ran through the test data set without issue, and am using your scripts on a metagenomic data set ~100 GB. Our cluster uses SLURM job submission, so I'm trying to do a dry run on my desktop (mac) be…
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My team recently ran xPore on both an RNA002 and RNA004 dataset. The RNA004 dataset, understandably, resulted in some pretty strange outcomes. In particular, the RNA004 output seemed to have an invers…
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Is kraken suitable for taxonomic analysis of long reads (nanopore sequences) ?
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Currently, a kmer that occurs twice in the same read gets a count of 2, same as a kmer that occurs once in two different reads. But the latter kmer is more trustworthy, since it was observed in two …
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I installed bracken using the command "conda install bracken" in the conda environment.
I finished analyzing the nanopore 16S metagenome and want to do further analysis with bracken.
I created the r…
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Hello,
This is similar to issue#93 but for me it is unsolved yet. I am running hifiasm v 0.16.1-r375 to assemble ~1Gb genome. My hifi fasta file size is about 50Gb . All files are output normally， …
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Dear Authors:
Here is my kmer distribution result from the most recent hifiasm v0.14.5 with default paras. I don't know why would this happen. Also, the N50 is not good either.
Please give some tip…
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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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Dear Brant,
I am working with a set of 67 samples in Linux. When I ran phyluce_assembly_assemblo_spades, computer worked for a whole week and I got an output for 65 samples (folders with contigs.fas…