Comments (3)
sounds like this is an issue with the rounding... I will look into this.
Thanks for noticing!
Is this just an issue with greengenes, Silva, or both?
On Wed, May 4, 2016 at 4:41 PM, Greg Caporaso [email protected]
wrote:
@nbokulich https://github.com/nbokulich, when @jairideout
https://github.com/jairideout and I were testing this we discovered
that the relative abundances are off in some of the expected taxonomy
files. We wanted to confirm that the taxa abundances in each sample sum to
1.0 (to seven decimal places, the unitetest.assertFloatEqual default). We
found that in some cases they're not equal even to two decimal places. For
example, in mock-3, the sum of the values in one of the samples is 1.02.
Would you be able to look into this? We have a test file that you can run
now which will help you identify these samples (run python
test/check_data_integrity.py in this repository - this is Python 3 only).—
You are receiving this because you were mentioned.
Reply to this email directly or view it on GitHub
https://github.com/gregcaporaso/mockrobiota/issues/3
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It's an issue with a bunch of them, to varying degrees. I'm realizing now that a table that sums the values for all dataset/database/version combinations would help. Either @jairideout or I can generate this for you today.
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Fixed in #9.
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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
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- split_libraries_fastq.py error with golay barcodes (mock-5 & -7) HOT 8
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- Question about barcode length in mock2 and mock6 HOT 1
- Demultiplexing Reverse Reads HOT 5
- CONTRIBUTING.md not found HOT 1
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