qiime2 q2-feature-classifier issues

qiime2 / q2-feature-classifier

QIIME 2 plugin supporting taxonomic classification

BSD 3-Clause "New" or "Revised" License

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issues

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Docs: blastn does search the full database every time

#207 colinbrislawn opened 1 day ago
2
DEP: template out vsearch pin to fix feature-classifier test failure in pathogenome distro

#206 lizgehret closed 2 weeks ago
0
REF: updates to q2-types

#205 ebolyen closed 3 months ago
0
memory usage for training-classifier

#204 colinbrislawn closed 3 months ago
1
Clarify vsearch's bitscores and evalues

#203 colinbrislawn closed 5 months ago
2
investigate alternative serialization format for classifiers to improve security

#202 gregcaporaso opened 5 months ago
0
MAINT: changes for test failures from python 3.9 & pandas 2.* update

#201 lizgehret closed 6 months ago
0
Using new NCBI 4 experimental taxonomic nt databases for qiime2 classifer

#200 jibrantahir closed 6 months ago
1
BUG: update help classify-sklearn action and help text for unsupporte…

#199 colinvwood closed 5 months ago
0
Find Consensus Annotation Parallelization

#198 Alexander-Jorjorian closed 4 months ago
2
MAINT: add threads/jobs primitives

#196 colinvwood closed 8 months ago
1
Improve confidence-based taxonomy prediction performance

#195 SirDavidLudwig closed 8 months ago
6
CI: Updates to ci-dev workflow

#194 hagenjp closed 1 year ago
0
failure on empty input sequence file

#193 nick-youngblut closed 1 year ago
3
CI: add additional tests in commands section

#192 Oddant1 closed 1 year ago
0
ENH: optional use of BLASTDB pre-indexed db input to `blast`

#191 nbokulich closed 1 year ago
4
Utilize one database instance for multiple classification jobs

#190 valentynbez opened 1 year ago
0
Reduce the memory footprint of `find_consensus_annotation`

#189 vaamb closed 10 months ago
4
Higher RAM use in classify-consensus-vsearch version 2022.8+

#188 nbokulich closed 10 months ago
1
Test suite does not build with scikit-learn 1.2.1

#187 tillea closed 6 months ago
2
fit-classifier-sklearn

#186 ghost closed 1 year ago
0
ci: force re-render again

#185 lizgehret closed 1 year ago
0
ci: force re-render for skbio update

#184 lizgehret closed 1 year ago
0
CVE-2007-4559 Patch

#183 TrellixVulnTeam closed 2 years ago
1
update descr and unit test for search_exact

#182 nbokulich closed 2 years ago
2
maint: revised vsearch signatures

#181 thermokarst closed 2 years ago
1
dep: unpin vsearch

#180 thermokarst closed 2 years ago
0
dep: rebuild for skbio 0.5.7 and biom 2.1.12

#179 thermokarst closed 2 years ago
0
dep: pin skbio, sklearn, and biom

#178 thermokarst closed 2 years ago
0
Read orientation auto detection failure

#177 wasade opened 2 years ago
6
refactored consensus classifiers

#176 nbokulich closed 2 years ago
16
BUG: _autotune_reads_per_batch fails when input is empty

#175 nbokulich opened 2 years ago
0
Testing classifier issue - Parameter 'confidence' received -1 as an argument, which is incompatible with parameter type: Float % Range(0, 1, inclusive_end=True) | Str % Choices('disable')

#174 XrandallX closed 2 years ago
1
ci: update recipe

#173 thermokarst closed 3 years ago
0
ci: library integration

#172 thermokarst closed 3 years ago
0
new: python 3.8

#171 thermokarst closed 3 years ago
0
vsearch: options incompatible with --search_exact

#170 emollier closed 2 years ago
3
MAINT: Close #167

#169 Oddant1 closed 3 years ago
4
pop from empty list error when taxonomy label not complete

#168 ssavvi closed 3 years ago
1
--p-reads-per-batch should be made consistent with --p-confidence

#167 BenKaehler closed 3 years ago
0
Unpin SKL (0.23.1)

#166 thermokarst closed 1 year ago
0
DEP: pin skl 0.23.1

#165 thermokarst closed 4 years ago
0
DEP: unpin sklearn 0.22.1

#164 thermokarst closed 4 years ago
1
improve extract-reads docs

#163 nbokulich closed 4 years ago
1
issue #160 solved

#162 adamovanja closed 4 years ago
3
TODO: Train new feature-classifiers using scikit-learn 0.23.1

#161 thermokarst closed 4 years ago
3
extract-reads: add trim-right option

#160 nbokulich closed 4 years ago
2
`classify-sklearn` orientation detector will raise confidence error

#159 nbokulich opened 4 years ago
0
Wrap makeblastdb to generate indexed blast database

#158 nbokulich closed 1 year ago
2
Update _blast.py

#157 cherman2 closed 4 years ago
3