Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
Top 0.6% on spack.io
Top 1.2% dependent packages on spack.io
Top 1.2% dependent packages on spack.io
spack.io : r-iranges
Foundation of integer range manipulation in Bioconductor. Provides efficient low-level and highly reusable S4 classes for storing, manipulating and aggregating over annotated ranges of integers. Implements an algebra of range operations, including efficient algorithms for finding overlaps and nearest neighbors. Defines efficient list-like classes for storing, transforming and aggregating large grouped data, i.e., collections of atomic vectors and DataFrames.
Registry
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Source
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purl: pkg:spack/r-iranges
License: Other
Latest release: about 2 years ago
First release: about 2 years ago
Dependent packages: 54
Last synced: 4 days ago
bioconductor-tximeta 1.18.1
Transcript Quantification Import with Automatic Metadata Transcript quantification import from Sa...1 version - Latest release: 9 months ago
r-signac 1.9.0
Analysis of Single-Cell Chromatin Data. A framework for the analysis and exploration of single-ce...3 versions - Latest release: 10 months ago - 1 maintainer
r-exomedepth 1.1.16
Calls Copy Number Variants from Targeted Sequence Data. Calls copy number variants (CNVs) from ta...2 versions - Latest release: over 1 year ago - 1 maintainer
r-dada2 1.20
Accurate sample inference from amplicon data with single nucleotide resolution2 versions - Latest release: almost 2 years ago - 1 maintainer
Top 2.0% on spack.io
7 versions - Latest release: about 2 years ago - 14 dependent packages - 1 maintainer
r-xvector 0.34.0
Foundation of external vector representation and manipulation in Bioconductor. Provides memory ef...7 versions - Latest release: about 2 years ago - 14 dependent packages - 1 maintainer
Top 4.2% on spack.io
7 versions - Latest release: about 2 years ago - 6 dependent packages - 1 maintainer
r-variantannotation 1.40.0
Annotation of Genetic Variants. Annotate variants, compute amino acid coding changes, predict cod...7 versions - Latest release: about 2 years ago - 6 dependent packages - 1 maintainer
r-tfbstools 1.32.0
Software Package for Transcription Factor Binding Site (TFBS) Analysis. TFBSTools is a package fo...7 versions - Latest release: about 2 years ago - 1 maintainer
Top 1.6% on spack.io
8 versions - Latest release: about 2 years ago - 20 dependent packages - 1 maintainer
r-summarizedexperiment 1.24.0
SummarizedExperiment container. The SummarizedExperiment container contains one or more assays, e...8 versions - Latest release: about 2 years ago - 20 dependent packages - 1 maintainer
r-somaticsignatures 2.30.0
Somatic Signatures. The SomaticSignatures package identifies mutational signatures of single nucl...7 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
Top 9.5% on spack.io
7 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
r-shortread 1.52.0
FASTQ input and manipulation. This package implements sampling, iteration, and input of FASTQ fil...7 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
Top 3.1% on spack.io
7 versions - Latest release: about 2 years ago - 9 dependent packages - 1 maintainer
r-rtracklayer 1.54.0
R interface to genome annotation files and the UCSC genome browser. Extensible framework for inte...7 versions - Latest release: about 2 years ago - 9 dependent packages - 1 maintainer
Top 1.6% on spack.io
8 versions - Latest release: about 2 years ago - 19 dependent packages - 1 maintainer
r-rsamtools 2.10.0
Binary alignment (BAM), FASTA, variant call (BCF), and tabix file import. This package provides a...8 versions - Latest release: about 2 years ago - 19 dependent packages - 1 maintainer
r-rnaseqmap 2.48.0
rnaSeq secondary analyses. The rnaSeqMap library provides classes and functions to analyze the RN...6 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
r-reportingtools 2.34.0
Tools for making reports in various formats. The ReportingTools software package enables users to...7 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
r-organismdbi 1.36.0
Software to enable the smooth interfacing of different database packages. The package enables a s...7 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
r-oligoclasses 1.56.0
Classes for high-throughput arrays supported by oligo and crlmm. This package contains class defi...7 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
r-msnbase 2.20.4
Base Functions and Classes for Mass Spectrometry and Proteomics. MSnbase provides infrastructure ...7 versions - Latest release: about 2 years ago - 1 maintainer
Top 9.5% on spack.io
2 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
r-missmethyl 1.28.0
Analysing Illumina HumanMethylation BeadChip Data. Normalisation, testing for differential variab...2 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
Top 3.1% on spack.io
7 versions - Latest release: about 2 years ago - 9 dependent packages - 1 maintainer
r-minfi 1.40.0
Analyze Illumina Infinium DNA methylation arrays. Tools to analyze & visualize Illumina Infinium ...7 versions - Latest release: about 2 years ago - 9 dependent packages - 1 maintainer
Top 7.1% on spack.io
3 versions - Latest release: about 2 years ago - 3 dependent packages - 1 maintainer
r-methylumi 2.40.1
Handle Illumina methylation data. This package provides classes for holding and manipulating Illu...3 versions - Latest release: about 2 years ago - 3 dependent packages - 1 maintainer
Top 5.8% on spack.io
7 versions - Latest release: about 2 years ago - 4 dependent packages - 1 maintainer
r-hdf5array 1.22.1
HDF5 backend for DelayedArray objects. Implements the HDF5Array and TENxMatrix classes, 2 conveni...7 versions - Latest release: about 2 years ago - 4 dependent packages - 1 maintainer
Top 9.5% on spack.io
7 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
r-gviz 1.38.3
Plotting data and annotation information along genomic coordinates. Genomic data analyses require...7 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
r-gtrellis 1.26.0
Genome Level Trellis Layout. Genome level Trellis graph visualizes genomic data conditioned by ge...7 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
r-gofuncr 1.14.0
Gene ontology enrichment using FUNC. GOfuncR performs a gene ontology enrichment analysis based o...5 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
Top 9.5% on spack.io
7 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
r-ggbio 1.42.0
Visualization tools for genomic data. The ggbio package extends and specializes the grammar of gr...7 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
Top 0.7% on spack.io
7 versions - Latest release: about 2 years ago - 46 dependent packages - 1 maintainer
r-genomicranges 1.46.1
Representation and manipulation of genomic intervals. The ability to efficiently represent and ma...7 versions - Latest release: about 2 years ago - 46 dependent packages - 1 maintainer
Top 1.8% on spack.io
7 versions - Latest release: about 2 years ago - 17 dependent packages - 1 maintainer
r-genomicfeatures 1.46.4
Conveniently import and query gene models. A set of tools and methods for making and manipulating...7 versions - Latest release: about 2 years ago - 17 dependent packages - 1 maintainer
Top 2.5% on spack.io
7 versions - Latest release: about 2 years ago - 11 dependent packages - 1 maintainer
r-genomicalignments 1.30.0
Representation and manipulation of short genomic alignments. Provides efficient containers for st...7 versions - Latest release: about 2 years ago - 11 dependent packages - 1 maintainer
Top 1.0% on spack.io
7 versions - Latest release: about 2 years ago - 31 dependent packages - 1 maintainer
r-genomeinfodb 1.30.1
Utilities for manipulating chromosome names, including modifying them to follow a particular nami...7 versions - Latest release: about 2 years ago - 31 dependent packages - 1 maintainer
r-exomecopy 1.40.0
Copy number variant detection from exome sequencing read depth. Detection of copy number variants...3 versions - Latest release: about 2 years ago - 1 maintainer
Top 7.1% on spack.io
7 versions - Latest release: about 2 years ago - 4 dependent packages - 1 maintainer
r-ensembldb 2.18.3
Utilities to create and use Ensembl-based annotation databases. The package provides functions to...7 versions - Latest release: about 2 years ago - 4 dependent packages - 1 maintainer
r-dmrcate 2.8.5
Methylation array and sequencing spatial analysis methods. De novo identification and extraction ...2 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
r-dirichletmultinomial 1.36.0
Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome Data. Dirichlet-multinomial m...7 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
r-dexseq 1.40.0
Inference of differential exon usage in RNA-Seq. The package is focused on finding differential e...2 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
Top 3.8% on spack.io
7 versions - Latest release: about 2 years ago - 8 dependent packages - 1 maintainer
r-deseq2 1.34.0
Differential gene expression analysis based on the negative binomial distribution. Estimate varia...7 versions - Latest release: about 2 years ago - 8 dependent packages - 1 maintainer
Top 5.8% on spack.io
6 versions - Latest release: about 2 years ago - 4 dependent packages - 1 maintainer
r-delayedmatrixstats 1.16.0
Functions that Apply to Rows and Columns of 'DelayedMatrix' Objects. A port of the 'matrixStats' ...6 versions - Latest release: about 2 years ago - 4 dependent packages - 1 maintainer
Top 2.4% on spack.io
7 versions - Latest release: about 2 years ago - 12 dependent packages - 1 maintainer
r-delayedarray 0.20.0
A unified framework for working transparently with on-disk and in-memory array-like datasets. Wra...7 versions - Latest release: about 2 years ago - 12 dependent packages - 1 maintainer
r-decipher 2.22.0
Tools for curating, analyzing, and manipulating biological sequences. A toolset for deciphering a...7 versions - Latest release: about 2 years ago - 1 maintainer
r-condop 1.0
Condition-Dependent Operon Predictions. An implementation of the computational strategy for the c...1 version - Latest release: about 2 years ago - 1 maintainer
r-complexheatmap 2.10.0
Make Complex Heatmaps. Complex heatmaps are efficient to visualize associations between different...7 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
r-codex 1.26.0
A Normalization and Copy Number Variation Detection Method for Whole Exome Sequencing. A normaliz...3 versions - Latest release: about 2 years ago - 1 maintainer
r-cner 1.30.0
CNE Detection and Visualization. Large-scale identification and advanced visualization of sets of...7 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
r-chipseq 1.44.0
A package for analyzing chipseq data, Tools for helping process short read data for chipseq exper...2 versions - Latest release: about 2 years ago - 1 maintainer
Top 9.5% on spack.io
7 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
r-bumphunter 1.36.0
Bump Hunter. Tools for finding bumps in genomic data7 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
Top 9.5% on spack.io
5 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
r-bsseq 1.30.0
Analyze, manage and store bisulfite sequencing data. A collection of tools for analyzing and visu...5 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
Top 3.8% on spack.io
7 versions - Latest release: about 2 years ago - 7 dependent packages - 1 maintainer
r-bsgenome 1.62.0
Software infrastructure for efficient representation of full genomes and their SNPs. Infrastructu...7 versions - Latest release: about 2 years ago - 7 dependent packages - 1 maintainer
Top 9.5% on spack.io
7 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
r-biovizbase 1.42.0
Basic graphic utilities for visualization of genomic data. The biovizBase package is designed to ...7 versions - Latest release: about 2 years ago - 2 dependent packages - 1 maintainer
Top 0.9% on spack.io
7 versions - Latest release: about 2 years ago - 35 dependent packages - 1 maintainer
r-biostrings 2.62.0
Efficient manipulation of biological strings. Memory efficient string containers, string matching...7 versions - Latest release: about 2 years ago - 35 dependent packages - 1 maintainer
r-bamsignals 1.26.0
Extract read count signals from bam files. This package allows to efficiently obtain count vector...7 versions - Latest release: about 2 years ago - 1 dependent package - 1 maintainer
Top 0.7% on spack.io
7 versions - Latest release: about 2 years ago - 49 dependent packages - 1 maintainer
r-annotationdbi 1.56.2
Manipulation of SQLite-based annotations in Bioconductor. Implements a user-friendly interface fo...7 versions - Latest release: about 2 years ago - 49 dependent packages - 1 maintainer
r-aneufinder 1.22.0
Analysis of Copy Number Variation in Single-Cell-Sequencing Data. AneuFinder implements functions...7 versions - Latest release: about 2 years ago - 1 maintainer
r-alpine 1.20.0
alpine. Fragment sequence bias modeling and correction for RNA-seq transcript abundance estimation.7 versions - Latest release: about 2 years ago - 1 maintainer
r-allelicimbalance 1.32.0
Investigates Allele Specific Expression. Provides a framework for allelic specific expression inv...7 versions - Latest release: about 2 years ago - 1 maintainer
r-aldex2 1.26.0
Analysis Of Differential Abundance Taking Sample Variation Into Account. A differential abundance...7 versions - Latest release: about 2 years ago - 1 maintainer