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Greetings!
I kindly request your guidance in addressing this error. Your assistance is greatly appreciated.
Additionally, I believe it would be highly beneficial if your team could enhance the do…
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Hello there!
I'm interested in using `khmer` to count and filter kmers from transcriptome datasets and then use the raw kmer counts across multiple (~10) samples as the "X" matrix for a classificatio…
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Hey @philippbayer, I don't know how much you want me chipping in with these suggestions? Feel free to ignore this, or tell me to mind my own business :). At least on a github issue, I can post a longe…
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## Expected Behavior
easy-search using Alphafold/Uniprot database. Command run: `foldseek easy-search [PDBfile] afuniprot [PDBfilename].m8 tmpFolder`
## Current Behavior
```
Query database size: 1…
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genomad end-to-end --cleanup --splits 8 '/home/wenluyin/GCF_009025895.1/ncbi_dataset/data/GCF_009025895.1/GCF_009025895.1_ASM902589v1_genomic.fna' genomad_output genomad_db
╭────────────────────────…
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See #32; I'm doing my own thing (limited time, specific goals) and will document here.
Goal: evaluate how many false k-mers can be dropped from RNAseq data sets using a combination of diginorm and lo…
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Sometimes, Ray Meta seems stuck. The log output looks as follows:
```
...
Rank 7 computing contig abundances [63043/130531] [118/118]
Rank 77 computing contig abundances [62815/130236] [1/118]
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If the read name containing each can be found, I think jellyfish can be used to do more creative work, rather than just counting kmer, e.g. remove reads with some high occurrence kmer.
bzvew updated
6 years ago
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### Description of bug
HI,
I am trying to assemble genome skim data, on spades (have tried both installing through conda and through downloading source code and compiling) and every time I do, I get…
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Hi,
I tried this tool; it takes ~53GB for the human genome and did not finish in 24 hours (not sure when will it finish), may I ask if the multithreading option will be introduced in the future?
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