h5vc
H5VC is a data management software tool designed to simplify the analysis of large sets of genome sequencing data, such as exomes and whole genomes. It provides a tally data structure for storing counts of nucleotides, samples, strands, and genomic positions. The software includes a range of features, such as data visualization, quality assessment, and statistical computation, to facilitate the analysis of SNVs and InDels, copy-number estimation, and mutation spectrum analysis.
Topic
Sequencing
Detail
Operation: Correlation
Software interface: Library
Language: R
License: GNU General Public License v3
Cost: Free
Version name: 2.32.0
Credit: The European Commission through the Seventh Framework Programme Health project Radiant.
Input: BAM
Output: -
Contact: Paul Theodor Pyl paul.theodor.pyl@gmail.com
Collection: -
Maturity: Mature
Publications
- h5vc: scalable nucleotide tallies with HDF5.
- Pyl PT, et al. h5vc: scalable nucleotide tallies with HDF5. h5vc: scalable nucleotide tallies with HDF5. 2014; 30:1464-6. doi: 10.1093/bioinformatics/btu026
- https://doi.org/10.1093/bioinformatics/btu026
- PMID: 24451629
- PMC: PMC4016699
Download and documentation
Source: http://bioconductor.org/packages/release/bioc/src/contrib/h5vc_2.32.0.tar.gz
Documentation: http://bioconductor.org/packages/release/bioc/manuals/h5vc/man/h5vc.pdf
Home page: http://bioconductor.org/packages/release/bioc/html/h5vc.html
Links: http://bioconductor.org/packages/release/bioc/vignettes/h5vc/inst/doc/h5vc.tour.html
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