Data from: IM-TORNADO: a tool for comparison of 16S reads from paired-end libraries

Jeraldo P, Kalari K, Chen X, Bhavsar J, Mangalam A, White B, Nelson H, Kocher J, Chia N

Date Published: December 30, 2014

DOI: http://dx.doi.org/10.5061/dryad.fm67n

 

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Title Files for taxonomy comparison
Downloaded 1788 times
Description Synthetic mock dataset used for taxonomy assignment comparison, across multiple read lengths. File includes scripts used and raw validation data.
Download comparison_taxonomy.tar.bz2 (203.9 Mb)
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Title Files for comparison of sequence aligners
Downloaded 2342 times
Description Synthetic mock datasets used to compare the mulitple sequence aligners cmalign (from the infernal package) versus the NAST algorithm (from the PyNAST implementation). File includes R scripts and resulting raw validation data.
Download comparison_aligners.tar.bz2 (222.0 Mb)
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Title Files for validation with realistic synthetic reads
Downloaded 11507 times
Description Synthetic mock datasets used for validation based on a realistic human stool microbiome dataset. These are NOT real bacterial reads. Those reads are available as example data from the IM-TORNADO pipeline. File includes scripts and raw validation data.
Download validation_realistic.tar.bz2 (440.2 Mb)
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Title Files for taxonomy comparison using reads with errors
Downloaded 15 times
Description Synthetic mock datasets (100 replicates) used for validation of taxonomy using reads with errors and different length. File also includes scripts and resulting raw data for the validation.
Download validation_taxonomy_errors.tar.bz2 (6.451 Gb)
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Title Files for validation of beta diversity using 16S rDNA regions V3 to V5
Downloaded 20715 times
Description Synthetic mock datasets (100 replicates) used for validation of beta diversity across synthetic communities using 16S rDNA region V3 to V5. File also includes scripts and resulting raw data for the validation.
Download validation_V3V5.tar.bz2 (3.864 Gb)
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Title Files for validation of beta diversity using 16S rDNA regions V6 to V9
Downloaded 25810 times
Description Synthetic mock datasets (100 replicates) used for validation of beta diversity across synthetic communities using 16S rDNA region V6 to V9. File also includes scripts and resulting raw data for the validation.
Download validation_V6V9.tar.bz2 (3.403 Gb)
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When using this data, please cite the original publication:

Jeraldo P, Kalari K, Chen X, Bhavsar J, Mangalam A, White B, Nelson H, Kocher J, Chia N (2014) IM-TORNADO: a tool for comparison of 16S reads from paired-end libraries. PLoS ONE 9(12): e114804. http://dx.doi.org/10.1371/journal.pone.0114804

Additionally, please cite the Dryad data package:

Jeraldo P, Kalari K, Chen X, Bhavsar J, Mangalam A, White B, Nelson H, Kocher J, Chia N (2014) Data from: IM-TORNADO: a tool for comparison of 16S reads from paired-end libraries. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.fm67n
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