implicit class CannoliFragmentDataset extends AnyRef
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- new CannoliFragmentDataset(fragments: FragmentDataset)
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def
alignWithBowtie(args: BowtieArgs): AlignmentDataset
Align the paired-end reads in this FragmentDataset with Bowtie via Cannoli.
Align the paired-end reads in this FragmentDataset with Bowtie via Cannoli.
- args
Bowtie function arguments.
- returns
AlignmentDataset.
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def
alignWithBowtie2(args: Bowtie2Args): AlignmentDataset
Align the paired-end reads in this FragmentDataset with Bowtie 2 via Cannoli.
Align the paired-end reads in this FragmentDataset with Bowtie 2 via Cannoli.
- args
Bowtie2 function arguments.
- returns
AlignmentDataset.
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def
alignWithBwaMem(args: BwaMemArgs): AlignmentDataset
Align the paired-end reads in this FragmentDataset with bwa mem via Cannoli.
Align the paired-end reads in this FragmentDataset with bwa mem via Cannoli.
- args
Bwa mem function arguments.
- returns
AlignmentDataset.
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def
alignWithBwaMem2(args: BwaMem2Args): AlignmentDataset
Align the paired-end reads in this FragmentDataset with Bwa-mem2 via Cannoli.
Align the paired-end reads in this FragmentDataset with Bwa-mem2 via Cannoli.
- args
BwaMem2 function arguments.
- returns
AlignmentDataset.
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def
alignWithGem(args: GemArgs): AlignmentDataset
Align the paired-end reads in this FragmentDataset with GEM-Mapper via Cannoli.
Align the paired-end reads in this FragmentDataset with GEM-Mapper via Cannoli.
- args
GEM-Mapper function arguments.
- returns
AlignmentDataset.
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def
alignWithMagicBlast(args: MagicBlastArgs): AlignmentDataset
Align the paired-end reads in this FragmentDataset with Magic-BLAST via Cannoli.
Align the paired-end reads in this FragmentDataset with Magic-BLAST via Cannoli.
- args
Magic-BLAST function arguments.
- returns
AlignmentDataset.
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def
alignWithMinimap2(args: Minimap2Args): AlignmentDataset
Align the paired-end reads in this FragmentDataset with Minimap2 via Cannoli.
Align the paired-end reads in this FragmentDataset with Minimap2 via Cannoli.
- args
Minimap2 function arguments.
- returns
AlignmentDataset.
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def
alignWithSnap(args: SnapArgs): AlignmentDataset
Align the paired-end reads in this FragmentDataset with SNAP via Cannoli.
Align the paired-end reads in this FragmentDataset with SNAP via Cannoli.
- args
SNAP function arguments.
- returns
AlignmentDataset.
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def
alignWithStar(args: StarArgs): AlignmentDataset
Align the paired-end reads in this FragmentDataset with STAR via Cannoli.
Align the paired-end reads in this FragmentDataset with STAR via Cannoli.
- args
STAR function arguments.
- returns
AlignmentDataset.
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def
alignWithUnimap(args: UnimapArgs): AlignmentDataset
Align the paired-end reads in this FragmentDataset with Unimap via Cannoli.
Align the paired-end reads in this FragmentDataset with Unimap via Cannoli.
- args
Unimap function arguments.
- returns
AlignmentDataset.
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