Comments (3)
The raw data have been updated to correct this issue, and new links are now available in dataset-metadata.tsv
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The index reads lack the barcode sequence in the fastq header. The following command is required prior to calling join_paired_ends.py and/or split_libraries_fastq.py
gunzip -c mock-index-read.fastq.gz | paste - - - - | awk '{print $1" "$2$3 ; print $3; print $4; print $5}' | gzip -c > mock-index-read.corrected.fastq.gz
from mockrobiota.
Thank you, @mdeleeuw. I will add your comments here and on this issue to the README.md pages for these datasets. I have added these README.md files, located in the home directory for each dataset, to list notes on each dataset and share tips for using the data. Your input has helped guide the creation of these files.
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Related Issues (20)
- Permanent "issues" or notes pages for each mock community dataset HOT 4
- Automatic taxonomy string extraction
- Update required metadata
- Unable to replicate community composition of Mock-3 HOT 3
- Shotgun Mock HOT 2
- new data integrity checks HOT 5
- split_libraries_fastq.py error with golay barcodes (mock-5 & -7) HOT 8
- Potential issue demultiplexing mock-8 HOT 2
- Failing to demultiplex mock-3 HOT 3
- Error preprocessing mock 7 and 8 : Failed qual conversion HOT 1
- Question about barcode length in mock2 and mock6 HOT 1
- Demultiplexing Reverse Reads HOT 5
- CONTRIBUTING.md not found HOT 1
- Trouble generating a pull request HOT 3
- add accuracy data and recommendations for mock communities on README
- Mock2 expected abundance replication issue HOT 4
- replace QIIME 1 commands with QIIME 2 commands
- Mock 11 primers HOT 1
- Is Mock-1 HiSeq or MiSeq? HOT 2
- How can I distinguish those three mock communities from Mock-10 data? HOT 2
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