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The idea would be, something like:
for node A, has attributes MIC_AMP_1: some number of genomes, MIC_AMP_2: some number of genomes.
We could do this after the fact to by going through the graph…
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I am experiencing the following issue with the `query` command. I've build a kmer database from hg38 using the following command:
`jellyfish count -m 15 -t 5 -s 100M -L 5 -o hg38.15.jf hg38.fa`
My…
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hi,
when i am downloading the KRAKEN database ,meeting the question that `Found jellyfish v1.1.12
kmer_estimator: thread count exceeds number of processors` . so the kraken database is incomple…
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作者你好,PPR-Meta在处理训练集时,将contigs根据长度分为了不同的group(A:100-400 bp B:400-800 bp C:800-1200 bp D:5-10 kbp)。
请问如果一个序列长度为401,在处理这条序列时,是将第401个序列删去,还是将401-800位用零补全呢?GroupL的序列预处理好像使用的是kmer?
如果将PPR-Meta应用于宏基因组预测时,一…
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This is the API mega-thread. Right now there are a ton of functions (all public) in the various VG classes. This issue will resolve when we've decided which should be public and which private, and the…
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Hello all,
I am using GATB library for my work. I have a naive question which I have not been able to find an answer for. While using one of the functions to find the abundance of a node (queryAbunda…
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submitted jobs using the aws batch executor show as failed even though sketches are being created and moved to the designated `outdir` location.
[Logs](https://us-west-2.console.aws.amazon.com/clo…
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Hi,
I have created a db (canoncical) with 51mers. When i run query sequence of 51bp (25bp-SNP-25bp) it'll mostly return counts of 0. However if i lengthen those query sequences to 101bp(50bp-SNP-50…
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Hello Yu Peng,
The idba_ud tool is published by you.It is a so useful tool that I want use in my project.However,I got some problems in the process.
My command is "idba_ud -r 01_merge.fa --…
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Re #7 : Consider adding read-level scores and thresholds. Possible scores:
- `kraken-filter` score: `taxon_kmers / unambiguous_kmers`
- [Andersen](https://bmcmicrobiol.biomedcentral.com/articles/…