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For GO-PATHGO alignment PATHGO:0000030 mediates ribosome inactivation in another organism
@genegodbold to provide references
Noting that we have 'related' viral terms: GO:0039604 suppression b…
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Hi,
I got a ModuleNotFoundError when testing the RiboCode installation with `RiboCode_onestep -V`
Can you help?
```
$ RiboCode_onestep -V
Traceback (most recent call last):
File "/nexus/posi…
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code :
protein_description = struct.getValue('pdbx_descriptor')
protein_description = protein_description.replace('\n', ' ')
protein_description = protein_descri…
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Hello,
I have ribosome profiling data from two conditions: treatment and control. For both treatment and control I have 3 RNA-seq libraries (quantified by MMSEQ) of the ribosome RNA footprints and …
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Many tests rely on the saved 70S ribosome volume, e.g.
https://github.com/ComputationalCryoEM/ASPIRE-Python/blob/6cb389edf21e811224cc98f4fde0d63ed778b9a7/tests/test_volume.py#L316-L323
However, …
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It would be nice to be able to annotate multiple classes of particles in a single session.
It isn't clear to me the best way to write this type of annotation to disk. Some options:
- Single star…
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I get the following error:
```
$ ./ribosome.py foo.py.dna arg1 arg2 arg3
usage: ribosome code generator, version 1.16 [-h] [--rna] dna
ribosome code generator, version 1.16: error: unrecognized argum…
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https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2941873/
We'll also want to look for other protein toxins like this that we can use to control the growth rate / fitness of our evolving cells!
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ribosome.js uses `exec` to run the rna file, and patches `stdout` and `stderr` in the callback, hence preventing "live" update of stdout and stderr.
The fix is to use `spawn` instead of `exec`: htt…
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Having problems to resolve the following error in the tutorial code:
```
rib = Ribosome(id='rib',
name='Ribosome',
kribo=12 * 3600,
kdeg=0.001,
…