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Rsamtools

Bioc current

Binary alignment (BAM), FASTA, variant call (BCF), and tabix file import

v2.28.0 · software · Artistic-2.0 | file LICENSE
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Release Lineage

Entered 2.5 · Oct 28, 2009

Current · Requires R 4.6

1.0 In 34 of 49 releases 3.23

Description

This package provides an interface to the 'samtools', 'bcftools', and 'tabix' utilities for manipulating SAM (Sequence Alignment / Map), FASTA, binary variant call (BCF) and compressed indexed tab-delimited (tabix) files.

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Topics

Software › Infrastructure › DataImport
Software › Technology › Sequencing
Software › BiologicalQuestion › Coverage
Software › WorkflowStep › Alignment
Software › WorkflowStep › QualityControl

Depended on by (307)

Bioconductor (287)

alabaster.files alabaster.vcf AllelicImbalance annmap AnnotationHub AnnotationHubData APAlyzer appreci8R ASpli ATACseqQC ATACseqTFEA atena BaalChIP BadRegionFinder bambu bamsignals BaseSpaceR BBCAnalyzer Bioc.gff BiocGenerics BiocParallel biomvRCNS biovizBase biscuiteer breakpointR BSgenome BSgenomeForge CAGEr casper CellBarcode +257 more

CRAN (20)

BIGr GenoPop ImprintCapASM MitoHEAR NIPTeR PlasmaMutationDetector Signac VALERIE iimi noisyr revert scPloidy umiAnalyzer MoBPS futurize gaawr2 inDAGO karyotapR polyRAD seqmagick

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