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Still needs work, esp around talking about what sourmash is actually doing. But first pass!
Charcoal identifies and removes contamination in metagenome-assembled genomes using k-mer based methods.
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I like to combine different metagenome-assembled genomes (contigs) into one.
I tried to use miniasmwith:
```
cat all_genomes/*.fasta > x.fasta
minimap2 -x asm10 -t4 x.fasta x.fasta | gzip -…
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**Submitting author:** @JeanMainguy (Jean Mainguy)
**Repository:** https://github.com/genotoul-bioinfo/Binette
**Branch with paper.md** (empty if default branch):
**Version:** v1.0.0
**Editor:** @arf…
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Hell Dashing2 developer,
Dashing can be use for genome derelication in nt format but I am wondering wither it is an option to have it also work for amino acid sequences (all gene of a genome in ami…
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- **Patric database** was found from
Guglielmini, J., Bourhy, P., Schiettekatte, O., Zinini, F., Brisse, S., & Picardeau, M. (2019). Genus-wide Leptospira core genome multilocus sequence typing for …
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This is the code they used in `CAMI II`
```
metaquast -r /path/to/set0-9/ref-genomes \
-t 24 --unique-mapping --no-icarus -o /path/to/output_dir \
-l megahit-103-df,megahit-113-df,megahit…
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Hi,
I have pairs of metagenomes that I want to compare the similarity of them as well as figure out the % of one metagenome that is contained within the other one. sourmash gather & search seem to …
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Dear Andreas,
I am trying to use your script query_missingGenes_from_module to spot missing genes from module but I need to do it recursively on multiple modules (a list provided) and then write the …
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I have been trying to assemble a 10Mb genome with uncorrected nanopore data (3-4 chromosomes expected). We have a lot of data, is that the reason Flye fails at the end?
[2019-06-22 11:00:05] INFO: …
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Hi All,
For a large soil metagenome project, we trial-assemble subsets to find the best strategy and settings for megahit.
We assembled 93 Mio PE reads derived from one of the soil samples (Illu…