bokulich-lab q2-types-genomics issues

bokulich-lab / q2-types-genomics

QIIME 2 types for genomics plugins.

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

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issues

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ENH: add `sample_dict` method to the `MultiFASTADirectoryFormat` format

#78 misialq closed 8 months ago
0
ENH: introduce the `FeatureData[Contig]` semantic type

#77 misialq closed 8 months ago
0
ENH: add sample_dict method to MultiFASTADirectoryFormat

#76 misialq closed 8 months ago
2
ENH: Semantic Type for `fetch-busco-db` output

#75 Sann5 closed 5 months ago
2
ENH: Semantic Type for `fetch-busco-db`'s output

#74 Sann5 opened 9 months ago
0
ENH: Update `NCBITaxonomyDirFmt` to accomodate data-version file

#73 Sann5 closed 9 months ago
7
ENH: Update `NCBITaxonomyDirFmt` to accomodate data-version file

#72 Sann5 closed 9 months ago
2
WIP do not merge

#71 misialq closed 9 months ago
0
IMP: add `feature_dict` method to `MAGSequencesDirFmt`

#70 colinvwood closed 11 months ago
1
ENH: Semantic Type for taxa specific diamond DB

#69 Sann5 closed 9 months ago
2
ENH: Semantic Type for taxa specific diamond DB

#68 Sann5 closed 9 months ago
0
ENH: Semantic Type for NCBI protein-taxonomy data

#67 Sann5 closed 10 months ago
2
ENH: Semantic Type for NCBI protein-taxonomy data

#66 Sann5 closed 10 months ago
0
ENH: add a `genome_dict` method on all `GenomeData`-linked formats

#65 misialq opened 11 months ago
0
ENH: Update Semantic Type for Diamond DB

#64 Sann5 closed 11 months ago
2
ENH: Semantic type for HMMER database

#63 Sann5 closed 5 months ago
0
ENH: add formats and type for reports generated by kraken2-inspect

#62 colinvwood closed 11 months ago
1
MAINT: update README badges

#61 misialq closed 1 year ago
0
change MAGSequencesDirFmt from single file dir fmt to standard dir fmt

#60 colinvwood closed 1 year ago
1
ENH: add eggnog/diamond DB validation

#58 misialq opened 1 year ago
0
add sample dict mapping of sample id to filepath for contig dir format

#57 colinvwood closed 11 months ago
2
add formats that make sample (or other) ids explicit

#56 gregcaporaso opened 1 year ago
7
rename the taxonomy id column in kraken2 report to taxon_id

#55 colinvwood closed 1 year ago
2
Kraken2 output transformer

#54 colinvwood closed 1 year ago
2
CI: Migrate to the new CI

#53 misialq closed 1 year ago
8
Duplicate semantic type

#52 JankoSet closed 1 year ago
1
IMP: Moves FeatureMap to q2-types

#51 lizgehret closed 1 year ago
1
ENH: add Kaiju types and formats

#50 misialq closed 1 year ago
1
ENH: add FeatureData types for Kraken 2 outputs

#49 misialq closed 1 year ago
1
ENH: add `FeatureMap[MAGtoContigs]` types and formats

#48 misialq closed 1 year ago
1
TypeError: BLAST6 is not a variant of SampleData.field['type']

#47 linlin-coder closed 1 year ago
2
add `FeatureMap` and `FeatureMap[MAGtoContigs]` types

#46 misialq closed 1 year ago
0
register type to format for moshpit

#45 gregcaporaso closed 1 year ago
1
add formats/types required by Kaiju

#44 misialq closed 1 year ago
0
remove excess dependencies

#43 nbokulich closed 1 year ago
1
ENH: add BrackenDB formats and types

#42 misialq closed 1 year ago
1
Implement `BrackenDB` format/type

#41 misialq closed 1 year ago
0
add database validation to the Kraken2DB format

#40 misialq opened 1 year ago
0
FEAT: add eggnog mapper types and formats, rebased to follow main.

#39 Keegan-Evans closed 1 year ago
1
FIX: Relax GenomeData file paths to allow for genome IDs

#38 misialq closed 1 year ago
1
FEAT: types and format for eggnog mapper

#37 Keegan-Evans closed 1 year ago
1
ENH: add Kraken2 database format

#36 misialq closed 1 year ago
1
ENH: add kraken2 types and formats

#35 misialq closed 1 year ago
1
Eggnog Annotate Function Ready

#34 Keegan-Evans closed 1 year ago
1
FEAT: Diamond search

#33 Keegan-Evans closed 1 year ago
1
MAINT: clean up CI tasks

#32 misialq closed 2 years ago
0
Update CI to follow the other repos

#31 misialq closed 2 years ago
0
FEAT: Eggnog formats and types

#30 Keegan-Evans closed 1 year ago
2
ENH: add MAG manifest to df transformer

#29 misialq closed 2 years ago
0
MAINT: year updates

#28 misialq closed 2 years ago
0