Ecosyste.ms: Packages

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

Top 2.7% on bioconductor.org
Top 2.9% downloads on bioconductor.org
Top 1.5% dependent packages on bioconductor.org
Top 6.3% forks on bioconductor.org

bioconductor.org : Gviz

Plotting data and annotation information along genomic coordinates

Registry - Source - Documentation - JSON
purl: pkg:bioconductor/Gviz
Keywords: Microarray, Sequencing, Software, Visualization
License: Artistic-2.0
Latest release: about 1 month ago
First release: 8 months ago
Dependent packages: 57
Downloads: 833,899 total
Stars: 66 on GitHub
Forks: 10 on GitHub
Total Commits: 457
Committers: 24
Average commits per author: 19.042
Development Distribution Score (DDS): 0.503
More commit stats: commits.ecosyste.ms
See more repository details: repos.ecosyste.ms
Last synced: 28 days ago

chimeraviz 1.30.0
Visualization tools for gene fusions
3 versions - Latest release: 19 days ago - 15.7 thousand downloads total - 36 stars on GitHub - 1 maintainer
crisprViz 1.6.0
Visualization Functions for CRISPR gRNAs
3 versions - Latest release: 21 days ago - 2 dependent packages - 3.21 thousand downloads total - 4 stars on GitHub - 1 maintainer
InterMineR 1.26.0
R Interface with InterMine-Powered Databases
4 versions - Latest release: 25 days ago - 10.4 thousand downloads total - 17 stars on GitHub - 1 maintainer
Top 4.7% on bioconductor.org
RnBeads 2.22.0
RnBeads
3 versions - Latest release: 26 days ago - 1 dependent package - 54.4 thousand downloads total - 1 maintainer
Top 3.3% on bioconductor.org
DMRcate 3.0.0
Methylation array and sequencing spatial analysis methods
4 versions - Latest release: 26 days ago - 2 dependent packages - 135 thousand downloads total - 1 maintainer
Top 3.4% on bioconductor.org
QuasR 1.44.0
Quantify and Annotate Short Reads in R
3 versions - Latest release: 26 days ago - 2 dependent packages - 92.3 thousand downloads total - 1 maintainer
extraChIPs 1.8.1
Additional functions for working with ChIP-Seq data
5 versions - Latest release: 26 days ago - 2 dependent packages - 2.54 thousand downloads total - 7 stars on GitHub - 1 maintainer
Top 5.2% on bioconductor.org
gwascat 2.36.0
representing and modeling data in the EMBL-EBI GWAS catalog
3 versions - Latest release: 26 days ago - 7 dependent packages - 64.9 thousand downloads total - 1 maintainer
fishpond 2.10.0
Fishpond: downstream methods and tools for expression data
3 versions - Latest release: 27 days ago - 1 dependent package - 27.1 thousand downloads total - 21 stars on GitHub - 1 maintainer
Top 3.6% on bioconductor.org
CNEr 1.40.0
CNE Detection and Visualization
3 versions - Latest release: 27 days ago - 1 dependent package - 198 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 0.1% on bioconductor.org
GenomicRanges 1.56.0
Representation and manipulation of genomic intervals
4 versions - Latest release: about 1 month ago - 604 dependent packages - 6.36 million downloads total - 1 maintainer
regutools 1.16.0
regutools: an R package for data extraction from RegulonDB
3 versions - Latest release: about 1 month ago - 4.61 thousand downloads total - 4 stars on GitHub - 1 maintainer
VariantFiltering 1.40.0
Filtering of coding and non-coding genetic variants
3 versions - Latest release: about 1 month ago - 24 thousand downloads total - 4 stars on GitHub - 1 maintainer
RNAmodR.RiboMethSeq 1.18.0
Detection of 2'-O methylations by RiboMethSeq
3 versions - Latest release: about 1 month ago - 5.45 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 3.3% on bioconductor.org
ensembldb 2.28.0
Utilities to create and use Ensembl-based annotation databases
3 versions - Latest release: about 1 month ago - 40 dependent packages - 1.06 million downloads total - 33 stars on GitHub - 1 maintainer
MIRit 0.99.13
Integrate microRNA and gene expression to decipher pathway complexity
2 versions - Latest release: about 1 month ago - 346 downloads total - 0 stars on GitHub - 1 maintainer
Top 8.8% on bioconductor.org
trackViewer 1.38.2
A R/Bioconductor package with web interface for drawing elegant interactive tracks or lollipop pl...
4 versions - Latest release: about 2 months ago - 3 dependent packages - 52.1 thousand downloads total - 1 maintainer
srnadiff 1.22.2
Finding differentially expressed unannotated genomic regions from RNA-seq data
4 versions - Latest release: 3 months ago - 7.11 thousand downloads total - 1 maintainer
CNVRanger 1.18.1
Summarization and expression/phenotype association of CNV ranges
4 versions - Latest release: 3 months ago - 8.7 thousand downloads total - 4 stars on GitHub - 1 maintainer
biomvRCNS 1.42.2
Copy Number study and Segmentation for multivariate biological data
4 versions - Latest release: 6 months ago - 21.4 thousand downloads total - 1 maintainer
epimutacions 1.6.1
Robust outlier identification for DNA methylation data
4 versions - Latest release: 6 months ago - 2.28 thousand downloads total - 0 stars on GitHub - 1 maintainer
cellbaseR 1.26.0
Querying annotation data from the high performance Cellbase web
4 versions - Latest release: 6 months ago - 10.7 thousand downloads total - 2 stars on GitHub - 1 maintainer
annmap 1.44.0
Genome annotation and visualisation package pertaining to Affymetrix arrays and NGS analysis.
3 versions - Latest release: 6 months ago - 19.3 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 6.7% on bioconductor.org
GenomicInteractions 1.36.0
Utilities for handling genomic interaction data
3 versions - Latest release: 6 months ago - 7 dependent packages - 43.7 thousand downloads total - 7 stars on GitHub - 1 maintainer
primirTSS 1.20.0
Prediction of pri-miRNA Transcription Start Site
3 versions - Latest release: 6 months ago - 5.92 thousand downloads total - 0 stars on GitHub - 1 maintainer
OGRE 1.6.0
Calculate, visualize and analyse overlap between genomic regions
3 versions - Latest release: 6 months ago - 2.13 thousand downloads total - 2 stars on GitHub - 1 maintainer
RNAmodR.AlkAnilineSeq 1.16.0
Detection of m7G, m3C and D modification by AlkAnilineSeq
3 versions - Latest release: 6 months ago - 1 dependent package - 5.39 thousand downloads total - 1 stars on GitHub - 1 maintainer
AllelicImbalance 1.40.0
Investigates Allele Specific Expression
3 versions - Latest release: 6 months ago - 24.9 thousand downloads total - 0 stars on GitHub - 1 maintainer
CAGEfightR 1.22.0
Analysis of Cap Analysis of Gene Expression (CAGE) data using Bioconductor
3 versions - Latest release: 6 months ago - 1 dependent package - 18.7 thousand downloads total - 8 stars on GitHub - 1 maintainer
motifbreakR 2.16.0
A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription F...
3 versions - Latest release: 6 months ago - 20.3 thousand downloads total - 24 stars on GitHub - 1 maintainer
methylPipe 1.36.0
Base resolution DNA methylation data analysis
3 versions - Latest release: 7 months ago - 1 dependent package - 21.3 thousand downloads total - 1 maintainer
Pi 2.14.0
Leveraging Genetic Evidence to Prioritise Drug Targets at the Gene and Pathway Level
3 versions - Latest release: 7 months ago - 17.9 thousand downloads total - 1 maintainer
uncoverappLib 1.12.0
Interactive graphical application for clinical assessment of sequence coverage at the base-pair l...
3 versions - Latest release: 7 months ago - 3.69 thousand downloads total - 3 stars on GitHub - 1 maintainer
DMRforPairs 1.38.0 removed
DMRforPairs: identifying Differentially Methylated Regions between unique samples using array bas...
2 versions - Latest release: 7 months ago - 16 thousand downloads total - 1 maintainer
maser 1.20.0
Mapping Alternative Splicing Events to pRoteins
3 versions - Latest release: 7 months ago - 10.9 thousand downloads total - 16 stars on GitHub - 1 maintainer
TVTB 1.28.0
TVTB: The VCF Tool Box
3 versions - Latest release: 7 months ago - 9.85 thousand downloads total - 2 stars on GitHub - 1 maintainer
RNAmodR 1.16.0
Detection of post-transcriptional modifications in high throughput sequencing data
3 versions - Latest release: 7 months ago - 3 dependent packages - 6.93 thousand downloads total - 2 stars on GitHub - 1 maintainer
Top 8.6% on bioconductor.org
SplicingGraphs 1.42.0
Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them
3 versions - Latest release: 7 months ago - 28.1 thousand downloads total - 1 maintainer
comapr 1.6.1
Crossover analysis and genetic map construction
3 versions - Latest release: 7 months ago - 2.36 thousand downloads total - 1 maintainer
TFutils 1.22.0
TFutils
3 versions - Latest release: 7 months ago - 7.52 thousand downloads total - 1 maintainer
PING 2.46.0
Probabilistic inference for Nucleosome Positioning with MNase-based or Sonicated Short-read Data
3 versions - Latest release: 7 months ago - 23.7 thousand downloads total - 1 maintainer
SPLINTER 1.28.0
Splice Interpreter of Transcripts
3 versions - Latest release: 7 months ago - 10.3 thousand downloads total - 0 stars on GitHub - 1 maintainer
BindingSiteFinder 2.0.0
Binding site defintion based on iCLIP data
3 versions - Latest release: 7 months ago - 2.89 thousand downloads total - 3 stars on GitHub - 1 maintainer
ASpli 2.12.0
Analysis of Alternative Splicing Using RNA-Seq
3 versions - Latest release: 7 months ago - 1 dependent package - 17 thousand downloads total - 1 maintainer
cicero 1.20.0
Predict cis-co-accessibility from single-cell chromatin accessibility data
3 versions - Latest release: 7 months ago - 21.1 thousand downloads total - 1 maintainer
coMET 1.34.0
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methyl...
3 versions - Latest release: 7 months ago - 21.1 thousand downloads total - 1 maintainer
GeneStructureTools 1.22.0
Tools for spliced gene structure manipulation and analysis
3 versions - Latest release: 7 months ago - 9.35 thousand downloads total - 1 maintainer
DeepBlueR 1.27.0 removed
DeepBlueR
2 versions - Latest release: 7 months ago - 12.8 thousand downloads total - 3 maintainers
Top 7.4% on bioconductor.org
ELMER 2.26.0
Inferring Regulatory Element Landscapes and Transcription Factor Networks Using Cancer Methylomes
3 versions - Latest release: 7 months ago - 38 thousand downloads total - 1 maintainer
segmenter 1.8.0
Perform Chromatin Segmentation Analysis in R by Calling ChromHMM
3 versions - Latest release: 7 months ago - 2.52 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 6.5% on bioconductor.org
interactiveDisplay 1.40.0
Package for enabling powerful shiny web displays of Bioconductor objects
3 versions - Latest release: 7 months ago - 1 dependent package - 39.9 thousand downloads total - 1 maintainer
pqsfinder 2.18.0
Identification of potential quadruplex forming sequences
3 versions - Latest release: 7 months ago - 13.3 thousand downloads total - 1 maintainer
MEAL 1.32.0
Perform methylation analysis
3 versions - Latest release: 7 months ago - 14.4 thousand downloads total - 1 maintainer
mCSEA 1.22.0
Methylated CpGs Set Enrichment Analysis
3 versions - Latest release: 7 months ago - 1 dependent package - 9.56 thousand downloads total - 1 maintainer
Pviz 1.36.0
Peptide Annotation and Data Visualization using Gviz
3 versions - Latest release: 7 months ago - 1 dependent package - 16.8 thousand downloads total - 1 maintainer
cummeRbund 2.44.0
Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.
3 versions - Latest release: 7 months ago - 576 thousand downloads total - 1 maintainer
tadar 1.0.0
Transcriptome Analysis of Differential Allelic Representation
2 versions - Latest release: 7 months ago - 981 downloads total - 0 stars on GitHub - 1 maintainer