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I understand the main goal of MEGAHIT is metagenome assembly but I found it very useful for regular assemblies as well. I tried SOAPdenovo-fusion with results that look promising, but unfortunately th…
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Hi,
I was wondering if MeshClust could be used to cluster MAGs in order to dereplicate them? There is no mention of metagenome assembly in your paper and I'm wondering if the distance estimation wou…
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## Context:
In ancient DNA studies, a popular field is to recover ancient pathogen genomes (e.g. [Yersinia pestis](http://dx.doi.org/10.1016/j.cub.2017.10.025)), i.e. the genomes of dead organisms …
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Hi Everyone,
I am a beginner on metagenome binning.
Following the instructions, I am preparing my own R data sets.
In the file "rRNA.sh", the "16S.fa" could be generated, however the generation…
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Large genome / metagenome could generate very huge assembly graph. We need to see how to load them properly.
Few ideas straight from the head:
* Switch to GFA parser from https://github.com/lh3/…
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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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Hi,
I am running maxbin2 for a metagenome assembly and created the coverage file (.tsv) using bowtie2.
I got permission denied error. pls look in to and suggest.
What is file directory and "sett…
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I am interested in generating metagenome assembly and binning from 650 samples with total data size of 4.2 Tb. I am running into low memory errors for merged assembly step, even with 900Gb memory (my …
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Dear all,
When I try to run metaWRAP for my dataset,
```
metawrap binning -o INITIAL_BINNING -t 40 -a /gpfs02/bioinfo/metagenome_data/Assembly_Merge/gp4.final.contigs.fa --metabat2 --maxbin2 --c…
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I have gotten the example data to run with InteMAP just fine. However now I am trying to run two of my own files before scaling up to my full data set. I have metagenomics samples from an Illumina his…