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Hello, I am trying to run your code for "predicting new data" part. I follow all your command from creating new environment, install the requirement based on your txt file, until running the bash scri…
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**Describe the bug**
pyrodigal does not work:
```
[ERROR: Pyrodigal could not be executed! Please make sure Pyrodigal is installed and executable or skip requiring workflow steps via via '--skip-c…
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Hi,
I was hoping to use the `read_eggnog_mapper` function of this package. I downloaded the humann2 "utility_mapping" database, but I can't find this file (L18 of the function's source code): ` F =…
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The curators are working on edits to the current README template (https://docs.google.com/document/d/1_Lg3xtLFwFbOI697bIuBPPLpQKqYLJ5I7j8UXVlXyIQ/edit)
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Dear ShortStack colleagues,
Thanks for sharing this wonderful tool for analysis of small RNAs.
According to the 2018 Criteria you published in www.plantcell.org/cgi/doi/10.1105/tpc.17.00851, I thi…
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https://mp.weixin.qq.com/s/xqO7Wur2cMLLwRUSgR1yuQ
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hi，
I'm having trouble using tRNAscan-SE.
input: tRNAscan-SE -B -o tRNA.out -f tRNA.ss -m tRNA.stats 001.fasta
error:
tRNAscan-SE v.2.0.9 (July 2021) - scan sequences for transfer RNAs
Copyright …
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Hello,
Thank you for developing BRIO - the BRIO website is really useful and intuitive.
However, I was wondering if there's a command line or an option to run more than 100 sequences at a time…
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Example: https://mila.quebec/en/publications/
It would be nice to reuse the same code as in the Mila website. Not sure if that's 'easily' possible via RTD
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Hello,
I have a simple question regarding the different ThreshKnot implementations available:
- In the LTF paper, you mention as reference for ThreshKnot the following paper: _L. Zhang, H. Zhang, D…