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Commit History
5 days ago
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taxonova 26.11.3: short reads (80 to 119 valid bases) are classified, with a note in the results and a hint before the run; pin 26.11.3 Running
MeluXina user4ffc1bd
10 days ago
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Unknown at a rank counts as no name in the reference: apart from the named taxa and from Unclassified in the summary, the confidence caption and the charts (dark grey); downloads unchanged
135bd2c -
Withheld species calls: count those lost to a higher rank, to rounding or to another rule apart from the gate and the group rule; confidence caption gives the counted reasons per rank
abd0a69 -
Inputs: refuse records with characters that are not IUPAC nucleotide codes
The whole input is refused, naming up to five records and the first offending character with its position; gaps and whitespace are allowed and ';' comment lines skipped, as taxonova's FASTA reader does.ede71c6 -
Backend for 26.11: classify through the package, operating point by default, lazy models, registry-only catalogue
- classifier.py runs taxonova classify through package_adapter instead of a copy of the 26.10 handler body, so the species gate and the V4-V5 species-group rule apply as on the command line - no confidence sent: the model's operating point; /classify keeps 0.8 - models load on first use into a bounded cache; start-up loads the default - deprecated ids get a message naming the command-line tool - preview_registry removed (withdrawn models); V4-V5 labels, primers and measured length windows - run summary: thresholds used and their source, species calls withheld by the gate, group labels reported at the genus, low-information reads9e4e9f9
15 days ago
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Region names without repetition
Verified signature69b285b -
Full names always: exact labels, no names switch
Verified signaturef1da1dc -
Species-first example data; content-hash cache busting for static files
Verified signature8e7087a -
Shorter Greengenes2 names for display, with a switch for full names
Verified signature2ac3ae7 -
New web app: composition plots, count tables, downloads; taxonova 26.10.1
Verified signatureRedesigned interface with an example dataset, composition, hierarchy and confidence plots, optional ASV count table for per-sample composition, and TSV, QIIME 2 and phyloseq downloads. Installs taxonova==26.10.1 and uses the short model ids.b018397