Documentation on post processing of simulated sequences
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- Dominant language
- Python
- Stars
- 302
- Forks
- 25
- PR merge metrics
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Description
Could you add additional documentation on the recommendations for post processing of the simulated sequencing data.
Following simulation of sequencing data, fastq or fastq.gz files were filtered and trimmed using X,Y and Z.
For example, typical ONT data is basecalled and demultiplexed using Guppy or Bonito. If the user includes adapters and barcodes in the sequences, should they demultiplex with guppy to permit filtering of sequencing WITHOUT a barcode on either end. Or should the user rely on more generic methods such as NanoFilt and cutadapt/trimmomatic?
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Research direction
No documentation file, test, or entry point is named. Review the existing documentation and the post-processing workflow for simulated FASTQ data, then resolve and document the recommendation for Guppy or Bonito versus generic filtering and trimming tools, including adapter and barcode handling.
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Assessment
- Domain
- bioinformatics, documentation
- Issue type
- Documentation
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100