Ecosyste.ms: Packages

An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.

Top 2.0% on bioconductor.org
Top 3.5% downloads on bioconductor.org
Top 2.5% dependent packages on bioconductor.org

bioconductor.org : DNAcopy

DNA Copy Number Data Analysis

Registry - Documentation - JSON
purl: pkg:bioconductor/DNAcopy
Keywords: CopyNumberVariation, Microarray, Software
License: CNRI-Python-GPL-Compatible
Latest release: 7 months ago
First release: 8 months ago
Dependent packages: 29
Downloads: 591,802 total
Last synced: 28 days ago

Top 5.6% on bioconductor.org
sesame 1.22.0
SEnsible Step-wise Analysis of DNA MEthylation BeadChips
3 versions - Latest release: 12 days ago - 4 dependent packages - 50.3 thousand downloads total - 48 stars on GitHub - 1 maintainer
Top 5.3% on bioconductor.org
CGHcall 2.66.0
Calling aberrations for array CGH tumor profiles.
3 versions - Latest release: 14 days ago - 3 dependent packages - 66.2 thousand downloads total - 1 maintainer
PureCN 2.10.0
Copy number calling and SNV classification using targeted short read sequencing
4 versions - Latest release: 14 days ago - 25.8 thousand downloads total - 120 stars on GitHub - 1 maintainer
Top 3.8% on bioconductor.org
fastseg 1.50.0
fastseg - a fast segmentation algorithm
3 versions - Latest release: 15 days ago - 1 dependent package - 94.3 thousand downloads total - 1 maintainer
Top 4.3% on bioconductor.org
ChAMP 2.34.0
Chip Analysis Methylation Pipeline for Illumina HumanMethylation450 and EPIC
3 versions - Latest release: 15 days ago - 1 dependent package - 117 thousand downloads total - 1 maintainer
Top 4.1% on bioconductor.org
GWASTools 1.50.0
Tools for Genome Wide Association Studies
3 versions - Latest release: 15 days ago - 4 dependent packages - 95.1 thousand downloads total - 13 stars on GitHub - 1 maintainer
Top 5.5% on bioconductor.org
MEDIPS 1.56.0
DNA IP-seq data analysis
3 versions - Latest release: 15 days ago - 48.6 thousand downloads total - 1 maintainer
Top 6.0% on bioconductor.org
cn.mops 1.50.0
cn.mops - Mixture of Poissons for CNV detection in NGS data
3 versions - Latest release: 15 days ago - 3 dependent packages - 54.7 thousand downloads total - 1 maintainer
Top 3.8% on bioconductor.org
Repitools 1.50.0
Epigenomic tools
3 versions - Latest release: 15 days ago - 1 dependent package - 70.8 thousand downloads total - 1 maintainer
Top 5.4% on bioconductor.org
QDNAseq 1.40.0
Quantitative DNA Sequencing for Chromosomal Aberrations
3 versions - Latest release: 22 days ago - 4 dependent packages - 48.1 thousand downloads total - 43 stars on GitHub - 1 maintainer
Top 1.5% on bioconductor.org
maftools 2.20.0 💰
Summarize, Analyze and Visualize MAF Files
3 versions - Latest release: 22 days ago - 9 dependent packages - 226 thousand downloads total - 421 stars on GitHub - 1 maintainer
rCGH 1.32.0
Comprehensive Pipeline for Analyzing and Visualizing Array-Based CGH Data
2 versions - Latest release: 6 months ago - 1 dependent package - 15.6 thousand downloads total - 4 stars on GitHub - 1 maintainer
AneuFinder 1.30.0
Analysis of Copy Number Variation in Single-Cell-Sequencing Data
2 versions - Latest release: 6 months ago - 17 thousand downloads total - 15 stars on GitHub - 1 maintainer
cn.farms 1.50.0
cn.FARMS - factor analysis for copy number estimation
3 versions - Latest release: 6 months ago - 25.4 thousand downloads total - 1 maintainer
conumee 1.36.0
Enhanced copy-number variation analysis using Illumina DNA methylation arrays
3 versions - Latest release: 6 months ago - 23.8 thousand downloads total - 1 maintainer
SCOPE 1.14.0
A normalization and copy number estimation method for single-cell DNA sequencing
3 versions - Latest release: 6 months ago - 4.8 thousand downloads total - 1 maintainer
Top 8.9% on bioconductor.org
CRImage 1.50.0
CRImage a package to classify cells and calculate tumour cellularity
3 versions - Latest release: 6 months ago - 32.2 thousand downloads total - 2 maintainers
contiBAIT 1.30.0
Improves Early Build Genome Assemblies using Strand-Seq Data
3 versions - Latest release: 6 months ago - 10.7 thousand downloads total - 1 maintainer
Top 6.2% on bioconductor.org
cghMCR 1.60.0
Find chromosome regions showing common gains/losses
3 versions - Latest release: 6 months ago - 50.4 thousand downloads total - 1 maintainer
CopyNumberPlots 1.18.0
Create Copy-Number Plots using karyoploteR functionality
3 versions - Latest release: 6 months ago - 2 dependent packages - 9.48 thousand downloads total - 6 stars on GitHub - 1 maintainer
MinimumDistance 1.46.0
A Package for De Novo CNV Detection in Case-Parent Trios
3 versions - Latest release: 6 months ago - 22.6 thousand downloads total - 1 maintainer
Top 9.5% on bioconductor.org
beadarraySNP 1.68.0
Normalization and reporting of Illumina SNP bead arrays
3 versions - Latest release: 6 months ago - 37.6 thousand downloads total - 1 maintainer
snapCGH 1.72.0 removed
Segmentation, normalisation and processing of aCGH data
2 versions - Latest release: 6 months ago - 2 dependent packages - 41.8 thousand downloads total - 1 maintainer
MDTS 1.22.0
Detection of de novo deletion in targeted sequencing trios
3 versions - Latest release: 6 months ago - 7.04 thousand downloads total - 1 maintainer
nullranges 1.8.0
Generation of null ranges via bootstrapping or covariate matching
3 versions - Latest release: 6 months ago - 1 dependent package - 4.44 thousand downloads total - 22 stars on GitHub - 1 maintainer
ADaCGH2 2.42.0
Analysis of big data from aCGH experiments using parallel computing and ff objects
3 versions - Latest release: 6 months ago - 30.1 thousand downloads total - 0 stars on GitHub - 1 maintainer
Clonality 1.50.0 removed
Clonality testing
2 versions - Latest release: 6 months ago - 23.2 thousand downloads total - 1 maintainer
CNAnorm 1.48.0
A normalization method for Copy Number Aberration in cancer samples
3 versions - Latest release: 6 months ago - 26.9 thousand downloads total - 1 maintainer
CNVrd2 1.40.0
CNVrd2: a read depth-based method to detect and genotype complex common copy number variants from...
3 versions - Latest release: 6 months ago - 22.3 thousand downloads total - 3 stars on GitHub - 1 maintainer