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Hi CAMISIM team,
First, thank you for developing and maintaining such a valuable tool! I am currently working with CAMI 2 challenge data sets and would like to simulate metatranscriptomes to accomp…
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Dear Ben,
I am interested in comparing my metagenomes to a number of samples from the same biome that are publicly available. My comparison would be in the form of beta diversity estimates and the …
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Gut metagenomes of Asian octogenarians reveal metabolic potential expansion and distinct microbial species associated with aging phenotypes – Aarthi Ravikrishnan – Nature Communications
https://www.…
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Dear Sourmash team,
Hope you are all good. I have a project where I have some shotgun metagenomics data of wild rodents.
I want to see if I can classify reads to plant genomes, to have an idea of…
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I'll use this issue to document steps to build a `k=31,scaled=1000` index for SRA metagenomes. This is the same process used for the current `k=21,scaled=1000` index in branchwater.sourmash.bio, but c…
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Hello
In July I succeded in obtaining results of CRISPR Cas identification with several metagenomes however today I was not able any results whatever the sequences that I used, time was running wi…
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I've read in the documentation that "Roary is not intended for meta-genomics or for comparing extremely diverse sets of genomes". Can you please explain why? What are the drawbacks of using it on gene…
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**RACI**
_Tag people in their roles_
- Responsible: @kaijli @vlilanl
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aclum updated
1 month ago
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Hi,
I'm having the aforementioned issue. Here's the output I'm getting from `gtdb_to_ncbi_majority_vote.py`, including the parameters I used:
```
gtdb_to_ncbi_majority_vote.py v0.2.0: Translate…
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### Hello @luispedro @unode
#### What's the recommendation when dealing with soil metagenomes since there is no particular predefined profiler for it or any other metagenome that has no predefined p…