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drivenbyentropy / aptasuite

A full-featured bioinformatics software collection for the comprehensive analysis of aptamers in HT-SELEX experiments.
https://drivenbyentropy.github.io/
GNU General Public License v3.0
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Import Data for AptaPLEX is too long #124

Closed CTPAHHIK38RUS closed 1 year ago

CTPAHHIK38RUS commented 1 year ago

Hello, I have successfully installed AptaSuite, but I have a problem again. I have a set of HTSeq data from different selection rounds. When I use them to generate a configuration file, the window does not hang, but there are no changes either. As I understood from the number of rejected sequences with the wrong alphabet, I need to delete the metadata after the > sign, and leave only the sequence itself? I also attach a data set and logs. My procedure:

  1. New Experiment
  2. Write name and description analysis, project path.
  3. Sequencing information - IS DEMULTIPLEXED (File per round)
  4. Single end
  5. File format - FASTQ
  6. Batch mode (without primers)
  7. Region size - exact length 40
  8. Add selection cycles
  9. Then import data And there what i have (screenshot) image

There is my log file and data set. log_2023-06-10_17-55-59.txt Library.zip

What am I doing wrong?

CTPAHHIK38RUS commented 1 year ago

Okay, I found what the problem was. I removed the > and metadata, leaving only the sequences. Aptosuite successfully loads them one by one and outputs statistics. But when loading all the loops, it still gets stuck on running AptaPLEX. I also attach a data set image seq.zip

drivenbyentropy commented 1 year ago

Hi.

Did AptaSuite create a log file for the latter case? If so, could you please attach it?

Thanks!

CTPAHHIK38RUS commented 1 year ago

Hi, now all functional working. Unfortunately, I have already deleted the log file of that case.

CTPAHHIK38RUS commented 1 year ago

I think the problem can be considered solved