r-bioc-purecn (2.12.0+dfsg-2)
2 versions available in ubuntu/resolute/universe/ppc64el
Details
Core information at a glance
- Distribution
- ubuntu
- Origin
- ubuntu-resolute-ports
- Repository
- https://ports.ubuntu.com
- Codename
- resolute
- Component
- universe
- Source
- r-bioc-purecn
- Architecture
- ppc64el
- Section
- universe/gnu-r
- Priority
- optional
- Maintainer
- Ubuntu Developers <[email protected]>
Size & integrity
Byte sizes and integrity verification
- Installed size
- 7.1 MB
- Size expected
- 6.1 MB
- Size actual
- 6.1 MB
- Size match
- match
Dependencies
Required package dependencies
- r-api-4.0
- r-api-bioc-3.20
- r-bioc-dnacopy
- r-bioc-variantannotation (>= 1.14.1)
- r-bioc-genomicranges (>= 1.20.3)
- r-bioc-iranges (>= 2.2.1)
- r-cran-rcolorbrewer
- r-bioc-s4vectors
- r-cran-data.table
- r-bioc-summarizedexperiment
- r-bioc-genomeinfodb
- r-bioc-genomicfeatures
- r-bioc-rsamtools
- r-bioc-biobase
- r-bioc-biostrings
- r-bioc-biocgenerics
- r-bioc-rtracklayer
- r-cran-ggplot2
- r-cran-gridextra
- r-cran-futile.logger
- r-cran-vgam
- r-cran-mclust
- r-bioc-rhdf5
- r-cran-matrix
Recommends
Recommended package dependencies
- None
Suggested packages
Recommended additional packages
Provides
Virtual packages provided
- None
Description
copy number calling and SNV classification using targeted short read sequencing
Tags
Package classification tags
None
Checksums
Hash values and integrity verification status
| Type | Actual | Match |
|---|---|---|
| MD5 | af4f867f…5ff4b889 | match |
| SHA-1 | 64e15db1…0b30ac48 | match |
| SHA-256 | 42b55635…2294ef6b | match |
| SHA-512 | 3fa42f54…bf21ef31 | match |
Contents
Files and directories included
. usr usr/lib usr/lib/R usr/lib/R/site-library usr/lib/R/site-library/PureCN usr/lib/R/site-library/PureCN/CITATION usr/lib/R/site-library/PureCN/DESCRIPTION usr/lib/R/site-library/PureCN/INDEX usr/lib/R/site-library/PureCN/Meta usr/lib/R/site-library/PureCN/Meta/Rd.rds usr/lib/R/site-library/PureCN/Meta/data.rds usr/lib/R/site-library/PureCN/Meta/features.rds usr/lib/R/site-library/PureCN/Meta/hsearch.rds usr/lib/R/site-library/PureCN/Meta/links.rds usr/lib/R/site-library/PureCN/Meta/nsInfo.rds usr/lib/R/site-library/PureCN/Meta/package.rds usr/lib/R/site-library/PureCN/Meta/vignette.rds usr/lib/R/site-library/PureCN/NAMESPACE usr/lib/R/site-library/PureCN/NEWS usr/lib/R/site-library/PureCN/R usr/lib/R/site-library/PureCN/R/PureCN usr/lib/R/site-library/PureCN/R/PureCN.rdb usr/lib/R/site-library/PureCN/R/PureCN.rdx usr/lib/R/site-library/PureCN/data usr/lib/R/site-library/PureCN/data/centromeres.rda usr/lib/R/site-library/PureCN/data/purecn.DNAcopy.bdry.rda usr/lib/R/site-library/PureCN/data/purecn.example.output.rda usr/lib/R/site-library/PureCN/doc usr/lib/R/site-library/PureCN/doc/PureCN.R usr/lib/R/site-library/PureCN/doc/PureCN.pdf usr/lib/R/site-library/PureCN/doc/Quick.R usr/lib/R/site-library/PureCN/doc/index.html usr/lib/R/site-library/PureCN/extdata usr/lib/R/site-library/PureCN/extdata/BenchmarkTumorOnly.R usr/lib/R/site-library/PureCN/extdata/Coverage.R usr/lib/R/site-library/PureCN/extdata/Dx.R usr/lib/R/site-library/PureCN/extdata/FilterCallableLoci.R usr/lib/R/site-library/PureCN/extdata/IntervalFile.R usr/lib/R/site-library/PureCN/extdata/NormalDB.R usr/lib/R/site-library/PureCN/extdata/PureCN.R usr/lib/R/site-library/PureCN/extdata/buggy_cnvkit.seg.gz usr/lib/R/site-library/PureCN/extdata/dist usr/lib/R/site-library/PureCN/extdata/dist/calculateSbdry.R usr/lib/R/site-library/PureCN/extdata/dist/downloadCentromeres.R usr/lib/R/site-library/PureCN/extdata/ex1.bam usr/lib/R/site-library/PureCN/extdata/ex1.bam.bai usr/lib/R/site-library/PureCN/extdata/ex1_gcgene.txt usr/lib/R/site-library/PureCN/extdata/ex1_intervals.txt usr/lib/R/site-library/PureCN/extdata/ex1_intervals_headered.txt usr/lib/R/site-library/PureCN/extdata/ex2_intervals.bed usr/lib/R/site-library/PureCN/extdata/ex2_intervals.txt usr/lib/R/site-library/PureCN/extdata/ex2_mappability.bed usr/lib/R/site-library/PureCN/extdata/ex2_mappability.bigWig usr/lib/R/site-library/PureCN/extdata/ex2_reference.fa usr/lib/R/site-library/PureCN/extdata/ex2_reference.fa.fai usr/lib/R/site-library/PureCN/extdata/ex2_reptiming.bed usr/lib/R/site-library/PureCN/extdata/ex3_intervals.bed usr/lib/R/site-library/PureCN/extdata/ex3_mappability.bed usr/lib/R/site-library/PureCN/extdata/ex3_reference.fa usr/lib/R/site-library/PureCN/extdata/ex3_reference.fa.fai usr/lib/R/site-library/PureCN/extdata/example.vcf.gz usr/lib/R/site-library/PureCN/extdata/example_allelic_counts.tsv usr/lib/R/site-library/PureCN/extdata/example_callable.bed.gz usr/lib/R/site-library/PureCN/extdata/example_cosmic.vcf.gz usr/lib/R/site-library/PureCN/extdata/example_cosmic.vcf.gz.tbi usr/lib/R/site-library/PureCN/extdata/example_gatk4_denoised_cr.tsv.gz usr/lib/R/site-library/PureCN/extdata/example_gatk4_modelfinal.seg.gz usr/lib/R/site-library/PureCN/extdata/example_intervals.txt usr/lib/R/site-library/PureCN/extdata/example_intervals_tiny.txt usr/lib/R/site-library/PureCN/extdata/example_intervals_tiny_ot.txt.gz usr/lib/R/site-library/PureCN/extdata/example_logratio.txt.gz usr/lib/R/site-library/PureCN/extdata/example_mutect2.vcf.gz usr/lib/R/site-library/PureCN/extdata/example_mutect2.vcf.gz.tbi usr/lib/R/site-library/PureCN/extdata/example_normal.list usr/lib/R/site-library/PureCN/extdata/example_normal.txt.gz usr/lib/R/site-library/PureCN/extdata/example_normal2.txt.gz usr/lib/R/site-library/PureCN/extdata/example_normal3.cnn usr/lib/R/site-library/PureCN/extdata/example_normal4.cnr usr/lib/R/site-library/PureCN/extdata/example_normal5.hdf5 usr/lib/R/site-library/PureCN/extdata/example_normal_tiny.txt usr/lib/R/site-library/PureCN/extdata/example_seg.txt usr/lib/R/site-library/PureCN/extdata/example_single.vcf.gz usr/lib/R/site-library/PureCN/extdata/example_single.vcf.gz.tbi usr/lib/R/site-library/PureCN/extdata/example_tumor.txt.gz usr/lib/R/site-library/PureCN/extdata/example_tumor2.txt.gz usr/lib/R/site-library/PureCN/extdata/example_tumor_tiny.txt usr/lib/R/site-library/PureCN/extdata/example_vcf.vcf.gz usr/lib/R/site-library/PureCN/extdata/example_vcf.vcf.gz.tbi usr/lib/R/site-library/PureCN/extdata/gatk4_m2_test_pon_db.tgz usr/lib/R/site-library/PureCN/extdata/gatk4_pon_db.tgz usr/lib/R/site-library/PureCN/extdata/issue109.vcf.gz usr/lib/R/site-library/PureCN/extdata/issue184.vcf.gz usr/lib/R/site-library/PureCN/extdata/issue184_2.vcf.gz usr/lib/R/site-library/PureCN/extdata/issue184_2_mb.rds usr/lib/R/site-library/PureCN/extdata/issue192_tumor.cnr usr/lib/R/site-library/PureCN/extdata/issue192_tumor.seg usr/lib/R/site-library/PureCN/extdata/issue62.vcf.gz usr/lib/R/site-library/PureCN/extdata/issue62.vcf.gz.tbi usr/lib/R/site-library/PureCN/extdata/normalpanel.vcf.gz usr/lib/R/site-library/PureCN/extdata/normalpanel.vcf.gz.tbi usr/lib/R/site-library/PureCN/extdata/test_coverage_overlapping_intervals.txt usr/lib/R/site-library/PureCN/help usr/lib/R/site-library/PureCN/help/AnIndex usr/lib/R/site-library/PureCN/help/PureCN.rdb usr/lib/R/site-library/PureCN/help/PureCN.rdx usr/lib/R/site-library/PureCN/help/aliases.rds usr/lib/R/site-library/PureCN/help/paths.rds usr/lib/R/site-library/PureCN/html usr/lib/R/site-library/PureCN/html/00Index.html usr/lib/R/site-library/PureCN/html/R.css usr/share usr/share/doc usr/share/doc/r-bioc-purecn usr/share/doc/r-bioc-purecn/changelog.Debian.gz usr/share/doc/r-bioc-purecn/copyright
Versions
2 versions in this repository slot, newest first