Htsjdk statistics

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Citations per year

Number of citations per year for the bioinformatics software tool Htsjdk
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Tool usage distribution map

This map represents all the scientific publications referring to Htsjdk per scientific context
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Htsjdk specifications

Information


Unique identifier OMICS_19951
Name Htsjdk
Software type Framework/Library
Interface Application programming interface
Restrictions to use None
Input format SAM, VCF
Output format SAM, VCF
Programming languages Java
Computer skills Advanced
Stability Stable
Maintained Yes

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Documentation


Additional information


https://github.com/samtools/htsjdk

Htsjdk citation

library_books

Advanced Characterization of DNA Molecules in rAAV Vector Preparations by Single stranded Virus Next generation Sequencing

2015
Mol Ther Nucleic Acids
PMCID: 4881760
PMID: 26506038
DOI: 10.1038/mtna.2015.32

[…] (but more robust) callers. The source code for this java program is available on GitHub at https://github.com/lindenb/jvarkit/wiki/MiniCaller. Essentially, this program uses the java library for BAM (htsjdk) to load a set of BAM files and scans all of the bases in the reference genome from 5′ to 3′; for each position, it detects the proportion of bases in each sample and prints a summary in VCF fo […]


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