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It seems that in AptaCluster, you are performing clustering with the entire DNA sequences. In RNA aptamers, the DNA sequences contains T7 promoter which will not appear in RNA aptamer molecules. So I …
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All data after completed analysis are exported as mapdb files even if the required format is written in a config file
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Hi.
For example, I have a sequence pool in a 500000 sequences with only a 40 nucleotide randomized region.
By setting the LSH Dimension value to 20, I indicate that sequences with a common 20 nucleo…
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[log_2020-05-12_11-31-28.txt](https://github.com/drivenbyentropy/aptasuite/files/4614674/log_2020-05-12_11-31-28.txt)
[log_2020-05-12_11-32-07.txt](https://github.com/drivenbyentropy/aptasuite/files/…
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Bug coming from a different issue with AptaCluster resulting in the cluster ids not being assigned in a strictly monotonically increasing fashion which is a requirement for many downstream operations.
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Hello,
I am working with aptasuite where i have to execute the program on 2000 sequences.
But it is taking too much time, and when the computer is in sleep mode the program stops running.
is it…
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Hi,
I've run AptaCluster for a set of rounds (R2-R9) from GUI v0.6.5 on Windows 10. The clusters displayed are clusters from round 9 only, and it cannot be changed - the Drop Down menu on the left (C…
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I first clustered aptamer pools with Aptasuite in command line. Then I tried to view it in "Aptamer Family Analysis" tab in GUI. However, I got this error in GUI:
[5:36:42 | SEVERE | Thread-19 ] :…
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When the clusters are already computed and I press the "Run AptaCluster" button, I get prompted for confirmation (yes), then the "loading" icon is displayed in the top-left corner of the app (and it m…
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Hi,
first, I think the example command line in the manual is wrong..
https://github.com/drivenbyentropy/aptasuite/wiki/Basic-Usage
it shows:
```
java -jar /path/to/aptacluster.jar
```
but …
ghost updated
6 years ago