Artifact Classes
assembly¶
QUASTResults¶
- plugin: assembly
- format:
QUASTResultsDirectoryFormat - transformers:
view import export QUASTResultsDirectoryFormat✔ ✔ QUASTResultsFormat✔ ✔
metadata¶
SampleData[ArtificialGrouping]¶
- plugin: metadata
- format:
ArtificialGroupingDirectoryFormat - transformers:
view import export ArtificialGroupingFormat✔ ✔ ArtificialGroupingDirectoryFormat✔ ✔
annotate¶
BUSCOResults¶
- plugin: annotate
- format:
BUSCOResultsDirectoryFormat - transformers:
view import export BUSCOResultsFormat✔ ✔ BUSCOResultsDirectoryFormat✔ ✔
ReferenceDB[BUSCO]¶
- plugin: annotate
- format:
BuscoDatabaseDirFmt - transformers:
view import export BuscoDatabaseDirFmt✔ ✔
EggnogHmmerIdmap¶
- plugin: annotate
- format:
EggnogHmmerIdmapDirectoryFmt - transformers:
view import export EggnogHmmerIdmapDirectoryFmt✔ ✔
sourmash¶
MinHashSig¶
- plugin: sourmash
- format:
MinHashSigJsonDirFormat - transformers:
view import export MinHashSigJsonDirFormat✔ ✔
rescript¶
FeatureData[SILVATaxonomy]¶
- plugin: rescript
- format:
SILVATaxonomyDirectoryFormat - transformers:
view import export SILVATaxonomyDirectoryFormat✔ ✔ SILVATaxonomyFormat✔ ✔
FeatureData[SILVATaxidMap]¶
- plugin: rescript
- format:
SILVATaxidMapDirectoryFormat - transformers:
view import export SILVATaxidMapDirectoryFormat✔ ✔ SILVATaxidMapFormat✔ ✔
quality-filter¶
QualityFilterStats¶
- plugin: quality-filter
- format:
QualityFilterStatsDirFmt - transformers:
view import export QualityFilterStatsDirFmt✔ ✔ QualityFilterStatsFmt✔ ✔
longitudinal¶
SampleData[FirstDifferences]¶
- plugin: longitudinal
- format:
FirstDifferencesDirectoryFormat - transformers:
view import export FirstDifferencesDirectoryFormat✔ ✔ FirstDifferencesFormat✔ ✔
types¶
Bowtie2Index¶
An index of sequences for Bowtie 2 to search against.
- plugin: types
- format:
Bowtie2IndexDirFmt - transformers:
view import export Bowtie2IndexDirFmt✔ ✔
DistanceMatrix¶
A symmetric matrix representing distances between entities.
- plugin: types
- format:
DistanceMatrixDirectoryFormat - transformers:
view import export DistanceMatrixDirectoryFormat✔ ✔ LSMatFormat✔ ✔
FeatureData[Taxonomy]¶
Hierarchical metadata or annotations associated with a set of features. This can contain one or more hierarchical levels, and annotations can be anything (e.g., taxonomy of organisms, functional categorization of gene families, ...) as long as it is strictly hierarchical.
- plugin: types
- format:
TSVTaxonomyDirectoryFormat - transformers:
view import export BIOMV210Format✔ HeaderlessTSVTaxonomyDirectoryFormat✔ TSVTaxonomyDirectoryFormat✔ ✔ HeaderlessTSVTaxonomyFormat✔ TSVTaxonomyFormat✔ ✔ BIOMV210DirFmt✔
FeatureData[Sequence]¶
Unaligned DNA sequences associated with a set of feature identifiers (e.g., ASV sequences or OTU representative sequence). Exactly one sequence is associated with each feature identifier.
- plugin: types
- format:
DNASequencesDirectoryFormat - transformers:
view import export RNAFASTAFormat✔ MixedCaseDNASequencesDirectoryFormat✔ MixedCaseDNAFASTAFormat✔ DNASequencesDirectoryFormat✔ ✔ DNAFASTAFormat✔ ✔ RNASequencesDirectoryFormat✔ BIOMV210Format✔ BIOMV210DirFmt✔
FeatureData[RNASequence]¶
Unaligned RNA sequences associated with a set of feature identifiers. Exactly one sequence is associated with each feature identifier.
- plugin: types
- format:
RNASequencesDirectoryFormat - transformers:
view import export DNASequencesDirectoryFormat✔ RNAFASTAFormat✔ ✔ DNAFASTAFormat✔ MixedCaseRNASequencesDirectoryFormat✔ MixedCaseRNAFASTAFormat✔ RNASequencesDirectoryFormat✔ ✔
FeatureData[PairedEndSequence]¶
- plugin: types
- format:
PairedDNASequencesDirectoryFormat - transformers:
view import export PairedDNASequencesDirectoryFormat✔ ✔
FeatureData[PairedEndRNASequence]¶
- plugin: types
- format:
PairedRNASequencesDirectoryFormat - transformers:
view import export PairedRNASequencesDirectoryFormat✔ ✔
FeatureData[AlignedSequence]¶
Aligned DNA sequences associated with a set of feature identifiers (e.g., aligned ASV sequences or OTU representative sequence). Exactly one sequence is associated with each feature identifier.
- plugin: types
- format:
AlignedDNASequencesDirectoryFormat - transformers:
view import export MixedCaseAlignedDNAFASTAFormat✔ AlignedDNASequencesDirectoryFormat✔ ✔ AlignedDNAFASTAFormat✔ ✔ MixedCaseAlignedDNASequencesDirectoryFormat✔
FeatureData[AlignedRNASequence]¶
Aligned RNA sequences associated with a set of feature identifiers. Exactly one sequence is associated with each feature identifier.
- plugin: types
- format:
AlignedRNASequencesDirectoryFormat - transformers:
view import export MixedCaseAlignedRNAFASTAFormat✔ AlignedRNASequencesDirectoryFormat✔ ✔ AlignedRNAFASTAFormat✔ ✔ MixedCaseAlignedRNASequencesDirectoryFormat✔
FeatureData[Differential]¶
- plugin: types
- format:
DifferentialDirectoryFormat - transformers:
view import export DifferentialFormat✔ ✔ DifferentialDirectoryFormat✔ ✔
FeatureData[ProteinSequence]¶
Unaligned protein sequences associated with a set of feature identifiers. Exactly one sequence is associated with each feature identifier.
- plugin: types
- format:
ProteinSequencesDirectoryFormat - transformers:
view import export ProteinFASTAFormat✔ ✔ ProteinSequencesDirectoryFormat✔ ✔
FeatureData[AlignedProteinSequence]¶
Aligned protein sequences associated with a set of feature identifiers. Exactly one sequence is associated with each feature identifier.
- plugin: types
- format:
AlignedProteinSequencesDirectoryFormat - transformers:
view import export AlignedProteinFASTAFormat✔ ✔ AlignedProteinSequencesDirectoryFormat✔ ✔
FeatureData[BLAST6]¶
BLAST results associated with a set of feature identifiers.
- plugin: types
- format:
BLAST6DirectoryFormat - transformers:
view import export BLAST6Format✔ ✔ BLAST6DirectoryFormat✔ ✔
FeatureData[SequenceCharacteristics]¶
Characteristics of sequences (e.g., the length of a gene in basepairs).
- plugin: types
- format:
SequenceCharacteristicsDirectoryFormat - transformers:
view import export SequenceCharacteristicsFormat✔ ✔ SequenceCharacteristicsDirectoryFormat✔ ✔
FeatureData[MAG]¶
- plugin: types
- format:
MAGSequencesDirFmt - transformers:
view import export MAGSequencesDirFmt✔ ✔
FeatureData[Contig]¶
- plugin: types
- format:
ContigSequencesDirFmt - transformers:
view import export ContigSequencesDirFmt✔ ✔
FeatureData[SingleBowtie2Index]¶
- plugin: types
- format:
Bowtie2IndexDirFmt - transformers:
view import export Bowtie2IndexDirFmt✔ ✔
FeatureMap[MAGtoContigs]¶
- plugin: types
- format:
MAGtoContigsDirFmt - transformers:
view import export MAGtoContigsFormat✔ ✔ MAGtoContigsDirFmt✔ ✔
FeatureTable[Frequency]¶
A feature table (e.g., samples by ASVs) where each value in the matrix is a whole number greater than or equal to 0 representing the frequency or count of a feature in the corresponding sample. These data should be raw (not normalized) counts.
- plugin: types
- format:
BIOMV210DirFmt - transformers:
view import export BIOMV100Format✔ BIOMV210DirFmt✔ ✔ DNASequencesDirectoryFormat✔ DNAFASTAFormat✔ TSVTaxonomyDirectoryFormat✔ BIOMV100DirFmt✔ TSVTaxonomyFormat✔ BIOMV210Format✔ ✔
FeatureTable[RelativeFrequency]¶
A feature table (e.g., samples by ASVs) where each value in the matrix is a real number greater than or equal to 0.0 and less than or equal to 1.0 representing the proportion of the sample that is composed of that feature. The feature values for each sample should sum to 1.0.
- plugin: types
- format:
BIOMV210DirFmt - transformers:
view import export BIOMV100Format✔ BIOMV210DirFmt✔ ✔ DNASequencesDirectoryFormat✔ DNAFASTAFormat✔ TSVTaxonomyDirectoryFormat✔ BIOMV100DirFmt✔ TSVTaxonomyFormat✔ BIOMV210Format✔ ✔
FeatureTable[PresenceAbsence]¶
A feature table (e.g., samples by ASVs) where each value indicates is a boolean indication of whether the feature is observed in the sample or not.
- plugin: types
- format:
BIOMV210DirFmt - transformers:
view import export BIOMV100Format✔ BIOMV210DirFmt✔ ✔ DNASequencesDirectoryFormat✔ DNAFASTAFormat✔ TSVTaxonomyDirectoryFormat✔ BIOMV100DirFmt✔ TSVTaxonomyFormat✔ BIOMV210Format✔ ✔
FeatureTable[Balance]¶
- plugin: types
- format:
BIOMV210DirFmt - transformers:
view import export BIOMV100Format✔ BIOMV210DirFmt✔ ✔ DNASequencesDirectoryFormat✔ DNAFASTAFormat✔ TSVTaxonomyDirectoryFormat✔ BIOMV100DirFmt✔ TSVTaxonomyFormat✔ BIOMV210Format✔ ✔
FeatureTable[Composition]¶
A feature table (e.g., samples by ASVs) where each value in the matrix is a whole number greater than 0 representing the frequency or count of a feature in the corresponding sample. These data are typically not raw counts, having been transformed in some way to exclude zero counts.
- plugin: types
- format:
BIOMV210DirFmt - transformers:
view import export BIOMV100Format✔ BIOMV210DirFmt✔ ✔ DNASequencesDirectoryFormat✔ DNAFASTAFormat✔ TSVTaxonomyDirectoryFormat✔ BIOMV100DirFmt✔ TSVTaxonomyFormat✔ BIOMV210Format✔ ✔
FeatureTable[PercentileNormalized]¶
- plugin: types
- format:
BIOMV210DirFmt - transformers:
view import export BIOMV100Format✔ BIOMV210DirFmt✔ ✔ DNASequencesDirectoryFormat✔ DNAFASTAFormat✔ TSVTaxonomyDirectoryFormat✔ BIOMV100DirFmt✔ TSVTaxonomyFormat✔ BIOMV210Format✔ ✔
FeatureTable[Design]¶
- plugin: types
- format:
BIOMV210DirFmt - transformers:
view import export BIOMV100Format✔ BIOMV210DirFmt✔ ✔ DNASequencesDirectoryFormat✔ DNAFASTAFormat✔ TSVTaxonomyDirectoryFormat✔ BIOMV100DirFmt✔ TSVTaxonomyFormat✔ BIOMV210Format✔ ✔
FeatureTable[Normalized]¶
A feature table that was normalized.
- plugin: types
- format:
BIOMV210DirFmt - transformers:
view import export BIOMV100Format✔ BIOMV210DirFmt✔ ✔ DNASequencesDirectoryFormat✔ DNAFASTAFormat✔ TSVTaxonomyDirectoryFormat✔ BIOMV100DirFmt✔ TSVTaxonomyFormat✔ BIOMV210Format✔ ✔
GenomeData[Genes]¶
- plugin: types
- format:
GenesDirectoryFormat - transformers:
view import export GenesDirectoryFormat✔ ✔
GenomeData[Proteins]¶
- plugin: types
- format:
ProteinsDirectoryFormat - transformers:
view import export ProteinsDirectoryFormat✔ ✔
GenomeData[Loci]¶
- plugin: types
- format:
LociDirectoryFormat - transformers:
view import export LociDirectoryFormat✔ ✔
GenomeData[Orthologs]¶
- plugin: types
- format:
SeedOrthologDirFmt - transformers:
view import export SeedOrthologDirFmt✔ ✔
GenomeData[DNASequence]¶
- plugin: types
- format:
GenomeSequencesDirectoryFormat - transformers:
view import export GenomeSequencesDirectoryFormat✔ ✔
GenomeData[NOG]¶
- plugin: types
- format:
OrthologAnnotationDirFmt - transformers:
view import export OrthologAnnotationDirFmt✔ ✔
SampleData[Orthologs]¶
- plugin: types
- format:
SeedOrthologDirFmt - transformers:
view import export SeedOrthologDirFmt✔ ✔
SampleData[NOG]¶
- plugin: types
- format:
OrthologAnnotationDirFmt - transformers:
view import export OrthologAnnotationDirFmt✔ ✔
KaijuDB¶
- plugin: types
- format:
KaijuDBDirectoryFormat - transformers:
view import export KaijuDBDirectoryFormat✔ ✔
SampleData[Kraken2Report]¶
- plugin: types
- format:
Kraken2ReportDirectoryFormat - transformers:
view import export Kraken2ReportDirectoryFormat✔ ✔
FeatureData[Kraken2Report]¶
- plugin: types
- format:
Kraken2ReportDirectoryFormat - transformers:
view import export Kraken2ReportDirectoryFormat✔ ✔
SampleData[Kraken2Output]¶
- plugin: types
- format:
Kraken2OutputDirectoryFormat - transformers:
view import export Kraken2OutputDirectoryFormat✔ ✔
FeatureData[Kraken2Output]¶
- plugin: types
- format:
Kraken2OutputDirectoryFormat - transformers:
view import export Kraken2OutputDirectoryFormat✔ ✔
Kraken2DB¶
- plugin: types
- format:
Kraken2DBDirectoryFormat - transformers:
view import export Kraken2DBDirectoryFormat✔ ✔
Kraken2DBReport¶
- plugin: types
- format:
Kraken2DBReportDirectoryFormat - transformers:
view import export Kraken2DBReportFormat✔ ✔ Kraken2DBReportDirectoryFormat✔ ✔
BrackenDB¶
- plugin: types
- format:
BrackenDBDirectoryFormat - transformers:
view import export BrackenDBDirectoryFormat✔ ✔
ImmutableMetadata¶
Immutable sample or feature metadata.
- plugin: types
- format:
ImmutableMetadataDirectoryFormat - transformers:
view import export ImmutableMetadataFormat✔ ✔ ImmutableMetadataDirectoryFormat✔ ✔
MultiplexedSingleEndBarcodeInSequence¶
Multiplexed sequences (i.e., representing multiple difference samples), which are single-end reads, and which contain the barcode (i.e., index) indicating the source sample as part of the sequence read.
- plugin: types
- format:
MultiplexedSingleEndBarcodeInSequenceDirFmt - transformers:
view import export MultiplexedSingleEndBarcodeInSequenceDirFmt✔ ✔ MultiplexedFastaQualDirFmt✔ FastqGzFormat✔ ✔
MultiplexedPairedEndBarcodeInSequence¶
Multiplexed sequences (i.e., representing multiple difference samples), which are paired-end reads, and which contain the barcode (i.e., index) indicating the source sample as part of the sequence read.
- plugin: types
- format:
MultiplexedPairedEndBarcodeInSequenceDirFmt - transformers:
view import export MultiplexedPairedEndBarcodeInSequenceDirFmt✔ ✔
RawSequences¶
- plugin: types
- format:
EMPSingleEndDirFmt - transformers:
view import export EMPSingleEndCasavaDirFmt✔ EMPSingleEndDirFmt✔ ✔
EMPSingleEndSequences¶
- plugin: types
- format:
EMPSingleEndDirFmt - transformers:
view import export EMPSingleEndCasavaDirFmt✔ EMPSingleEndDirFmt✔ ✔
EMPPairedEndSequences¶
- plugin: types
- format:
EMPPairedEndDirFmt - transformers:
view import export EMPPairedEndDirFmt✔ ✔ EMPPairedEndCasavaDirFmt✔
ErrorCorrectionDetails¶
- plugin: types
- format:
ErrorCorrectionDetailsDirFmt - transformers:
view import export ErrorCorrectionDetailsFmt✔ ✔ ErrorCorrectionDetailsDirFmt✔ ✔
PCoAResults¶
The results of running principal coordinate analysis (PCoA).
- plugin: types
- format:
OrdinationDirectoryFormat - transformers:
view import export OrdinationDirectoryFormat✔ ✔ OrdinationFormat✔ ✔
ProcrustesStatistics¶
The results of running Procrustes analysis.
- plugin: types
- format:
ProcrustesStatisticsDirFmt - transformers:
view import export ProcrustesStatisticsDirFmt✔ ✔ ProcrustesStatisticsFmt✔ ✔
SampleData[Sequences]¶
Collections of sequences associated with specified samples (i.e., demultiplexed sequences).
- plugin: types
- format:
QIIME1DemuxDirFmt - transformers:
view import export QIIME1DemuxFormat✔ ✔ SingleLanePerSampleSingleEndFastqDirFmt✔ QIIME1DemuxDirFmt✔ ✔
SampleData[SequencesWithQuality]¶
Collections of sequences with quality scores associated with specified samples (i.e., demultiplexed sequences).
- plugin: types
- format:
SingleLanePerSampleSingleEndFastqDirFmt - transformers:
SampleData[JoinedSequencesWithQuality]¶
Collections of joined paired-end sequences with quality scores associated with specified samples (i.e., demultiplexed sequences).
- plugin: types
- format:
SingleLanePerSampleSingleEndFastqDirFmt - transformers:
SampleData[PairedEndSequencesWithQuality]¶
Collections of unjoined paired-end sequences with quality scores associated with specified samples (i.e., demultiplexed sequences).
- plugin: types
- format:
SingleLanePerSamplePairedEndFastqDirFmt - transformers:
SampleData[MAGs]¶
- plugin: types
- format:
MultiMAGSequencesDirFmt - transformers:
view import export MultiMAGSequencesDirFmt✔ ✔ MultiFASTADirectoryFormat✔ ✔
SampleData[Contigs]¶
- plugin: types
- format:
ContigSequencesDirFmt - transformers:
view import export ContigSequencesDirFmt✔ ✔
SampleData[SingleBowtie2Index]¶
- plugin: types
- format:
Bowtie2IndexDirFmt - transformers:
view import export Bowtie2IndexDirFmt✔ ✔
SampleData[MultiBowtie2Index]¶
- plugin: types
- format:
MultiBowtie2IndexDirFmt - transformers:
view import export MultiBowtie2IndexDirFmt✔ ✔
SampleData[AlignmentMap]¶
FeatureData[AlignmentMap]¶
SampleData[MultiAlignmentMap]¶
- plugin: types
- format:
MultiBAMDirFmt - transformers:
view import export MultiBAMDirFmt✔ ✔
ProfileHMM[PressedProtein]¶
A collection of profile Hidden Markov Models for amino acid sequences in binary format and indexed.
- plugin: types
- format:
PressedProfileHmmsDirectoryFmt - transformers:
view import export PressedProfileHmmsDirectoryFmt✔ ✔
ProfileHMM[PressedDNA]¶
A collection of profile Hidden Markov Models for DNA sequences in binary format and indexed.
- plugin: types
- format:
PressedProfileHmmsDirectoryFmt - transformers:
view import export PressedProfileHmmsDirectoryFmt✔ ✔
ProfileHMM[PressedRNA]¶
A collection of profile Hidden Markov Models for RNA sequences in binary format and indexed.
- plugin: types
- format:
PressedProfileHmmsDirectoryFmt - transformers:
view import export PressedProfileHmmsDirectoryFmt✔ ✔
ProfileHMM[SingleProtein]¶
One single profile Hidden Markov Model representing a group of related proteins.
- plugin: types
- format:
ProteinSingleProfileHmmDirectoryFmt - transformers:
view import export ProteinSingleProfileHmmDirectoryFmt✔ ✔
ProfileHMM[SingleDNA]¶
One single profile Hidden Markov Model representing a group of related DNA sequences.
- plugin: types
- format:
DNASingleProfileHmmDirectoryFmt - transformers:
view import export DNASingleProfileHmmDirectoryFmt✔ ✔
ProfileHMM[SingleRNA]¶
One single profile Hidden Markov Model representing a group of related RNA sequences.
- plugin: types
- format:
RNASingleProfileHmmDirectoryFmt - transformers:
view import export RNASingleProfileHmmDirectoryFmt✔ ✔
ProfileHMM[MultipleProtein]¶
A collection of profile Hidden Markov Models, each representing a group of related proteins.
- plugin: types
- format:
ProteinMultipleProfileHmmDirectoryFmt - transformers:
view import export ProteinMultipleProfileHmmDirectoryFmt✔ ✔
ProfileHMM[MultipleDNA]¶
A collection of profile Hidden Markov Models, each representing a group of related DNA sequences.
- plugin: types
- format:
DNAMultipleProfileHmmDirectoryFmt - transformers:
view import export DNAMultipleProfileHmmDirectoryFmt✔ ✔
ProfileHMM[MultipleRNA]¶
A collection of profile Hidden Markov Models, each representing a group of related RNA sequences.
- plugin: types
- format:
RNAMultipleProfileHmmDirectoryFmt - transformers:
view import export RNAMultipleProfileHmmDirectoryFmt✔ ✔
ReferenceDB[Eggnog]¶
- plugin: types
- format:
EggnogRefDirFmt - transformers:
view import export EggnogRefDirFmt✔ ✔
ReferenceDB[Diamond]¶
- plugin: types
- format:
DiamondDatabaseDirFmt - transformers:
view import export DiamondDatabaseFileFmt✔ ✔ DiamondDatabaseDirFmt✔ ✔
ReferenceDB[NCBITaxonomy]¶
- plugin: types
- format:
NCBITaxonomyDirFmt - transformers:
view import export NCBITaxonomyDirFmt✔ ✔
ReferenceDB[EggnogProteinSequences]¶
- plugin: types
- format:
EggnogProteinSequencesDirFmt - transformers:
view import export EggnogProteinSequencesDirFmt✔ ✔
SampleData[AlphaDiversity]¶
Alpha diversity values, each associated with a single sample identifier.
- plugin: types
- format:
AlphaDiversityDirectoryFormat - transformers:
view import export AlphaDiversityDirectoryFormat✔ ✔ AlphaDiversityFormat✔ ✔
Phylogeny[Unrooted]¶
A phylogenetic tree not containing a defined root.
- plugin: types
- format:
NewickDirectoryFormat - transformers:
view import export NewickDirectoryFormat✔ ✔ NewickFormat✔ ✔
Phylogeny[Rooted]¶
A phylogenetic tree containing a defined root.
- plugin: types
- format:
NewickDirectoryFormat - transformers:
view import export NewickDirectoryFormat✔ ✔ NewickFormat✔ ✔
Hierarchy¶
- plugin: types
- format:
NewickDirectoryFormat - transformers:
view import export NewickDirectoryFormat✔ ✔ NewickFormat✔ ✔
Dist1D[Multi, Independent]¶
- plugin: types
- format:
TableJSONLDirFmt - transformers:
view import export TableJSONLDirFmt✔ ✔ TableJSONLFileFormat✔ ✔
Dist1D[NestedOrdered, Independent]¶
- plugin: types
- format:
TableJSONLDirFmt - transformers:
view import export TableJSONLDirFmt✔ ✔ TableJSONLFileFormat✔ ✔
Dist1D[Ordered, Independent]¶
- plugin: types
- format:
TableJSONLDirFmt - transformers:
view import export TableJSONLDirFmt✔ ✔ TableJSONLFileFormat✔ ✔
Dist1D[Unordered, Independent]¶
- plugin: types
- format:
TableJSONLDirFmt - transformers:
view import export TableJSONLDirFmt✔ ✔ TableJSONLFileFormat✔ ✔
Dist1D[NestedUnordered, Matched]¶
- plugin: types
- format:
TableJSONLDirFmt - transformers:
view import export TableJSONLDirFmt✔ ✔ TableJSONLFileFormat✔ ✔
Dist1D[Unordered, Matched]¶
- plugin: types
- format:
TableJSONLDirFmt - transformers:
view import export TableJSONLDirFmt✔ ✔ TableJSONLFileFormat✔ ✔
Dist1D[Ordered, Matched]¶
- plugin: types
- format:
TableJSONLDirFmt - transformers:
view import export TableJSONLDirFmt✔ ✔ TableJSONLFileFormat✔ ✔
Dist1D[Multi, Matched]¶
- plugin: types
- format:
TableJSONLDirFmt - transformers:
view import export TableJSONLDirFmt✔ ✔ TableJSONLFileFormat✔ ✔
Dist1D[NestedOrdered, Matched]¶
- plugin: types
- format:
TableJSONLDirFmt - transformers:
view import export TableJSONLDirFmt✔ ✔ TableJSONLFileFormat✔ ✔
Dist1D[NestedUnordered, Independent]¶
- plugin: types
- format:
TableJSONLDirFmt - transformers:
view import export TableJSONLDirFmt✔ ✔ TableJSONLFileFormat✔ ✔
StatsTable[Pairwise]¶
- plugin: types
- format:
TableJSONLDirFmt - transformers:
view import export TableJSONLDirFmt✔ ✔ TableJSONLFileFormat✔ ✔
fondue¶
SRAMetadata¶
- plugin: fondue
- format:
SRAMetadataDirFmt - transformers:
view import export NCBIAccessionIDsFormat✔ SRAMetadataDirFmt✔ ✔ NCBIAccessionIDsDirFmt✔ SRAMetadataFormat✔ ✔
SRAFailedIDs¶
- plugin: fondue
- format:
SRAFailedIDsDirFmt - transformers:
view import export SRAFailedIDsDirFmt✔ ✔ SRAFailedIDsFormat✔ ✔
NCBIAccessionIDs¶
- plugin: fondue
- format:
NCBIAccessionIDsDirFmt - transformers:
view import export NCBIAccessionIDsFormat✔ ✔ SRAMetadataDirFmt✔ NCBIAccessionIDsDirFmt✔ ✔ SRAMetadataFormat✔
quality-control¶
FeatureData[DecontamScore]¶
- plugin: quality-control
- format:
DecontamScoreDirFmt - transformers:
view import export DecontamScoreDirFmt✔ ✔ DecontamScoreFormat✔ ✔
feature-classifier¶
BLASTDB¶
- plugin: feature-classifier
- format:
BLASTDBDirFmtV5 - transformers:
view import export BLASTDBDirFmtV5✔ ✔
TaxonomicClassifier¶
- plugin: feature-classifier
- format:
TaxonomicClassiferTemporaryPickleDirFmt - transformers:
view import export TaxonomicClassiferTemporaryPickleDirFmt✔ ✔
sapienns¶
MetaphlanMergedAbundanceTable¶
- plugin: sapienns
- format:
MetaphlanMergedAbundanceDirectoryFormat - transformers:
view import export MetaphlanMergedAbundanceDirectoryFormat✔ ✔ MetaphlanMergedAbundanceFormat✔ ✔
HumannPathAbundanceTable¶
- plugin: sapienns
- format:
HumannPathAbundanceDirectoryFormat - transformers:
view import export HumannPathAbundanceFormat✔ ✔ HumannPathAbundanceDirectoryFormat✔ ✔
HumannGeneFamilyTable¶
- plugin: sapienns
- format:
HumannGeneFamilyDirectoryFormat - transformers:
view import export HumannGeneFamilyFormat✔ ✔ HumannGeneFamilyDirectoryFormat✔ ✔
composition¶
FeatureData[DifferentialAbundance]¶
- plugin: composition
- format:
DataLoafPackageDirFmt - transformers:
view import export DataLoafPackageDirFmt✔ ✔
FeatureData[ANCOMBC2Output]¶
- plugin: composition
- format:
ANCOMBC2OutputDirFmt - transformers:
view import export ANCOMBC2OutputDirFmt✔ ✔
sample-classifier¶
SampleEstimator[Classifier]¶
- plugin: sample-classifier
- format:
SampleEstimatorDirFmt - transformers:
view import export SampleEstimatorDirFmt✔ ✔
SampleEstimator[Regressor]¶
- plugin: sample-classifier
- format:
SampleEstimatorDirFmt - transformers:
view import export SampleEstimatorDirFmt✔ ✔
SampleData[BooleanSeries]¶
- plugin: sample-classifier
- format:
BooleanSeriesDirectoryFormat - transformers:
view import export BooleanSeriesDirectoryFormat✔ ✔ BooleanSeriesFormat✔ ✔
SampleData[RegressorPredictions]¶
- plugin: sample-classifier
- format:
PredictionsDirectoryFormat - transformers:
view import export PredictionsFormat✔ ✔ PredictionsDirectoryFormat✔ ✔
SampleData[ClassifierPredictions]¶
- plugin: sample-classifier
- format:
PredictionsDirectoryFormat - transformers:
view import export PredictionsFormat✔ ✔ PredictionsDirectoryFormat✔ ✔
FeatureData[Importance]¶
- plugin: sample-classifier
- format:
ImportanceDirectoryFormat - transformers:
view import export ImportanceDirectoryFormat✔ ✔ ImportanceFormat✔ ✔
SampleData[Probabilities]¶
- plugin: sample-classifier
- format:
ProbabilitiesDirectoryFormat - transformers:
view import export ProbabilitiesDirectoryFormat✔ ✔ ProbabilitiesFormat✔ ✔
SampleData[TrueTargets]¶
- plugin: sample-classifier
- format:
TrueTargetsDirectoryFormat - transformers:
view import export PredictionsFormat✔ ✔ TrueTargetsDirectoryFormat✔ ✔
vsearch¶
UchimeStats¶
- plugin: vsearch
- format:
UchimeStatsDirFmt - transformers:
view import export UchimeStatsFmt✔ ✔ UchimeStatsDirFmt✔ ✔