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Issues list

Make sequence-level classification assessment per unique sequence? question Further information is requested
#67 by peterjc was closed Jan 24, 2019
1
Inclusive vs strict taxonomy classification enhancement New feature or request
#62 by peterjc was closed Feb 6, 2019
1
1
classifier assessment using taxid, not species name? enhancement New feature or request
#61 by peterjc was closed Feb 19, 2019
3
Report DB coverage of species in assessment report enhancement New feature or request
#59 by peterjc was closed Feb 15, 2019
2
Generate confusion matrix, specificity, f-score etc from controls enhancement New feature or request
#58 by peterjc was closed Jan 18, 2019
1
5
Examining the Undetermined reads (failed barcodes) question Further information is requested
#57 by peterjc was closed Feb 20, 2020
1
Intermitent hmmscan failure bug Something isn't working
#56 by peterjc was closed Mar 4, 2019
5
Preserve subdirectory structure on output? question Further information is requested
#54 by peterjc was closed Jan 21, 2019
2
Refactor (swarm) classifiers to avoid duplicated work
#49 by peterjc was closed Dec 20, 2018
1
1
WARNING: Unusual cropping for read (hmmscan vs fixed trimming) question Further information is requested
#48 by peterjc was closed Nov 21, 2019
2
14
Use expected amplicon primer sequences in prepare-reads step? enhancement New feature or request
#45 by peterjc was closed Feb 26, 2019
1
5
Apply ITS1 filter at end of prepare-reads
#43 by peterjc was closed Dec 19, 2018
1
4
Plate Level thresholds - command line API implications enhancement New feature or request
#42 by peterjc was closed Jan 9, 2019
1
2
Use vsearch --fastq_mergepairs or flash to merge paired reads? question Further information is requested
#41 by peterjc was closed Mar 8, 2019
1
2
Use vsearch --derep_fulllength to make reads non-redundant? question Further information is requested
#40 by peterjc was closed May 4, 2021
2
Handling of IUPAC ambiguity codes question Further information is requested
#38 by peterjc was closed Feb 15, 2019
2
Record versions of dependencies including command line tools enhancement New feature or request
#37 by peterjc was closed May 1, 2019
1
Change the NCBI Entrez search to reduce test failures bug Something isn't working
#29 by peterjc was closed Feb 5, 2019
1
2
Help run prepare and classify etc commands on the cluster
#28 by peterjc was closed Mar 8, 2019
5
Command to classify FASTA sequences
#27 by peterjc was closed Jan 4, 2019
5
Command to prepare raw data (QC, trimming, correction, merging, etc)
#26 by peterjc was closed Dec 17, 2018
4
Supporting synonyms during species name validation enhancement New feature or request
#21 by peterjc was closed Sep 16, 2019
6
Dumping as FASTA, SQL, Sqlite, tabular
#19 by peterjc was closed Sep 16, 2019
3
Clean up species names; species column should contain only species name
#17 by widdowquinn was closed Dec 6, 2018
14
Selecting sub-database by genus/species
#16 by peterjc was closed Dec 6, 2018
1
6
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