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Hi,
I am writing here to seek your help in understanding the output files from the TRASH run.
For the Summary.of.repeatitive.regions file, what these terms refers to-
1. ave.score -- Is this m…
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I have downloaded the repository and have tried executing the sample run using the MSA file provided.
`./MSSPE-design.sh ZIKV-96seqs.fasta 13 500 250 50 0.1 2 -9000 8`
I have tried running the c…
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Hi.
In my analysis of single end RNA-seq data, ~95% of kmers are discarded for not matching the theoretical kmer profile. Could you please suggest what could be the possible reason for such a low m…
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I am attempting to create a simple module which converts gbk files to "feature.tab" Patric format so I can run your amazing code :). However, in your code I am having trouble finding the definition wh…
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Hi All,
I am trying to extract features from a given fasta file (DNA or RNA), using kmer.py script as per the description in the README. While running the code in a juypter notebook it is throwing th…
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While indexing vg graph, I get PathGraphBuilder::write(): Size limit exceeded, construction aborted
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# Critical Assesment of Metagenome Interpretation (CAMI)
CAMI is an open challenge for meta-omic's programs where the developers of said programs test out their programs on multiple different dataset…
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dear author
When I learn the method of identifing CEN180 reapeat from your article,I have some questions. 1. When you merged contiguous windows, did you re-identify the new kmer or use the kmer obtai…
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Hi I am running wtdbg2 on my viral metagenomics shotgun fastq files 56k reads. I was able to assemble long reads, but was unable to create a consensus ctg.fa file. What do you recommend running for …
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@luizirber, one more thing for today (not intending to distract you), it would be really interesting if you could calculate the species accumulation curve (SAC) for hash sets in clusters of metagenome…
nmb85 updated
3 years ago