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- [ ] 把文件拷过去
- [ ] 下载各个软件
- [ ] 跑
- [ ] 对比结果（几个指标）
#**腾飞科创任务**
[https://gitcode.com/gh_mirrors/ka/kaiju/overview?utm_source=artical_gitcode&index=top&type=card&webUrl&isLogin=1](url)
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Hi,
I have tried run the command `kraken2 --db=~/Metagenomics/kraken/krakenDB --threads 20 database.kraken`
However I am getting the error message:
kraken2: database ("~/Metagenomics/kraken/…
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Hi, and many thanks for the excellent annotation tool. I have a query regarding viral AMG annotation. I have a bunch of viral contigs identified through metagenomics. The contigs were cleaned using C…
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I am getting the below error when I try to run this tool. Could you have a look and advise>
```bash
executor > local (8)
[b0/8a92f7] process > download_pprmeta:pprmetaGet [ 0%] 0 of 1
[…
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Thank you for this wonderful tool!
Should we filter out the host (human) genome before executing the pipeline e.g. using kneadData or fastp? the same also applies to the PhiX genomes?
I tried He…
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Add `dustmasker` as a tool to viral-ngs for pre-processing of metagenomics databases (removal of low-complexity sequences). It's part of the blast toolset so the `Tool` subclass should perhaps be adde…
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I have recently used VIBRANT with a metagenomics dataset with very good results, and I wonder if VIBRANT can also be run skipping the recovery step. I have few hundreds viruses that I recovered from s…
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I am considering looking for overlapping genes in some viral metagenomes I obtained. I am not interested into the overlaps themselves but more into genes that I would have missed because of big overla…
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Many sites that run `toil-cwl-runner`, especially HPC systems, need quite a lot of options defined. It would be nice if there was a config file that formed the basis of the command-line options.
See …
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Hi,
I have a set of assemblies generated from metaSPAdes, and am getting a "KeyError" for only some of them when running VIBRANT. The contig names do not have any special characters or spaces. Thes…