Biocview "DataImport"

10X Genomics Chromium
10X Genomics Chromium
10X Genomics Chromium
Accelerated similarity searching of small molecules
Accelerated similarity searching of small molecules
Accelerated similarity searching of small molecules
Access HDF5 content from h5serv
Access HDF5 content from h5serv
Access the ArrayExpress Microarray Database at EBI and build Bioconductor data structures: ExpressionSet, AffyBatch, NChannelSet
A compilation of ENCODE metadata
A compilation of ENCODE metadata
A compilation of ENCODE metadata
A compilation of metadata from NCBI SRA and tools
A compilation of metadata from NCBI SRA and tools
A compilation of metadata from NCBI SRA and tools
A complete analysis of single cell subpopulations, from identifying subpopulations to analysing their relationship (scGPS = single cell Global Predictions of Subpopulation)
A complete analysis of single cell subpopulations, from identifying subpopulations to analysing their relationship (scGPS = single cell Global Predictions of Subpopulation)
Add resources to ExperimentHub
Add resources to ExperimentHub
A DownStream Chemo-Proteomics Analysis Pipeline
A DownStream Chemo-Proteomics Analysis Pipeline
A DownStream Chemo-Proteomics Analysis Pipeline
Affymetrix File Parsing SDK
Affymetrix File Parsing SDK
A GatingML Interface for Cross Platform Cytometry Data Sharing
A GatingML Interface for Cross Platform Cytometry Data Sharing
A generic R plugin dispatcher for BASE
A graphical interface designed to facilitate analysis of microarrays and miRNA/RNA-seq data on laptops
Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.
Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.
Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.
Analysis of Agilent Microarray Data [draft]
Analysis of Brain Imaging Data
Analysis of Cap Analysis of Gene Expression (CAGE) data using Bioconductor
Analysis of Cap Analysis of Gene Expression (CAGE) data using Bioconductor
Analysis of Illumina microarray data [A DRAFT - TRUE]
Analysis of Large Affymetrix Microarray Data Sets
Analysis of Large Affymetrix Microarray Data Sets
Analytical Tools for MassArray Data
Analyze Illumina Infinium DNA methylation arrays
Analyze Illumina Infinium DNA methylation arrays
Analyze Illumina Infinium DNA methylation arrays
An interface package for the BIOM file format
An interface package for the BIOM file format
An interface package for the BIOM file format
An mzIdentML parser for R
An mzIdentML parser for R
Annotation and analysis of biological dynamical systems using flow cytometry
Annotation and analysis of biological dynamical systems using flow cytometry
Annotation and gene expression data retrieval from Bgee database
Annotation and gene expression data retrieval from Bgee database. TopAnat, an anatomical entities Enrichment Analysis tool for UBERON ontology
Annotation and gene expression data retrieval from Bgee database. TopAnat, an anatomical entities Enrichment Analysis tool for UBERON ontology
Annotation of Genetic Variants
Annotation of Genetic Variants
Annotation of Genetic Variants
A normalization and copy number estimation method for single-cell DNA sequencing
A normalization and copy number estimation method for single-cell DNA sequencing
An R interface to the Rfam database
An R interface to the Rfam database
An R Object-oriented Microarray Analysis package
An R package for RNA visualization and analysis
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
An R package for the creation of complex genomic profile plots
an R package for visualization of tree and annotation data
an R package for visualization of tree and annotation data
an R package for visualization of tree and annotation data
'Antares' Results Processing
'Antares' Results Processing
A package for importing and analyzing data from Roche's Genome Sequencer System
A probe-level data file format used by aroma.affymetrix [DEPRECATED]
A Probe-Level Data File Format Used by 'aroma.affymetrix' [deprecated]
A Probe-Level Data File Format Used by 'aroma.affymetrix' [deprecated]
A Thin Wrapper around the ImmuneSpace Database
A Thin Wrapper around the ImmuneSpace Database
A tool for unsupervised projection of single cell RNA-seq data
A tool for unsupervised projection of single cell RNA-seq data
A toolkit for APA analysis using RNA-seq data
A toolkit for APA analysis using RNA-seq data
A Tool to Analyze and Design NGS Based Custom Gene Panels
A Tool to Analyze and Design NGS Based Custom Gene Panels
A Tool to Analyze and Design NGS Based Custom Gene Panels
Augmented functionality for analysis of epigenomic variance
Automated analysis of high-throughput qPCR data
Automated spectraL Processing System for NMR
Automatic Statistical Identification in Complex Spectra
Automatic Statistical Identification in Complex Spectra
A work flow for analysis and normalization of pre-processing RT-qPCR data
Base Classes and Functions for Phylogenetic Tree Input and Output
Base Classes and Functions for Phylogenetic Tree Input and Output
Base Classes and Functions for Phylogenetic Tree Input and Output
Base Functions and Classes for Mass Spectrometry and Proteomics
Base Functions and Classes for Mass Spectrometry and Proteomics
Base Functions for Bioinformatics
Base Functions for Bioinformatics
Base Functions for Bioinformatics
Base Functions for Bioinformatics
Base Functions for Bioinformatics
Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data
bcbio Base Functions
bcbio RNA-Seq
bcbio RNA-Seq
bcbio Single-Cell RNA-Seq
bcbio Single-Cell RNA-Seq
Big multivariate data plotted interactively
Big multivariate data plotted interactively
Big multivariate data plotted interactively
Binary alignment (BAM), FASTA, variant call (BCF), and tabix file import
Binary alignment (BAM), FASTA, variant call (BCF), and tabix file import
Bioconductor Algorithms for Big Data
Bioconductor Management with Portable Encapsulated Project (PEP) Objects
Biodb, a Library for Connecting to Chemical and Biological Databases
biodbChebi, a library for connecting to the ChEBI Database
biodbHmdb, a library for connecting to the HMDB Database
biodbKegg, a library for connecting to the KEGG Database
biodbUniprot, a library for connecting to the Uniprot Database
Bioinformatics pipelines based on Rcwl
Bioinformatics pipelines based on Rcwl
Broadcast data between R and Gaggle
Browse the Human Cell Atlas data portal
Browse the Human Cell Atlas data portal
Browse the Human Cell Atlas data portal
Browse the Human Cell Atlas data portal
Cache files downloaded from S3
CB2: A cluster-based approach for distinguishing cells from background barcodes in 10x Genomics data
CDF Environment Maker
Cell OrderiNg by FluorEScence Signal
CGH Micro-Array NORmalization
Cheminformatics Toolkit for R
Cheminformatics Toolkit for R
Cheminformatics Toolkit for R
Cheminformatics Toolkit for R
ChIPanalyser: Predicting Transcription Factor Binding Sites
ChIPanalyser: Predicting Transcription Factor Binding Sites
ChIPanalyser: Predicting Transcription Factor Binding Sites
chipseq: A package for analyzing chipseq data
chipseq: A package for analyzing chipseq data
ChIP-Seq data scaling according to spike-in control
ChIP-Seq data scaling according to spike-in control
ChIPUtils - A package to perform exploratory analysis of ChIP data and most commonly used QC measures
C++ infrastructure for representing and interacting with the gated cytometry
Classes and functions for Array Comparative Genomic Hybridization data
Classes and Methods for Handling Genomic Interaction Data
Client to access AnnotationHub resources
Client to access AnnotationHub resources
Client to access ExperimentHub resources
Client to access ExperimentHub resources
Cluster and Tree Conversion.
Clustering, differential expression, and trajectory analysis for single- cell RNA-Seq
Clustering, differential expression, and trajectory analysis for single- cell RNA-Seq
CMap Tools in R
CMap Tools in R
CNE Detection and Visualization
CNE Detection and Visualization
co-expressed gene-set enrichment analysis
co-expressed gene-set enrichment analysis
Compiling Bioconductor to Handle Each Matrix Type
Compiling Bioconductor to Handle Each Matrix Type
Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs
Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs
Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs
Compute cell-type specific enrichments with high resolution
Compute coverage matrices from recount quickly using bwtool
Connect high throughput Array data from different platforms
Convenience Functions for Biscuit
Convenience Functions for Biscuit
Convenience Functions for Biscuit
Convenience package for solving some liftover challenges
Convenience package for solving some liftover challenges
Converting experimental metadata from ISA-tab into Bioconductor data structures
Converting experimental metadata from ISA-tab into Bioconductor data structures
Convert the GatingSet from Boost serialization to protocol buffer format
Copy-Number Analysis of Large Microarray Data Sets
Copy-Number Analysis of Large Microarray Data Sets
Core Methods and Classes Used by 'aroma.*' Packages Part of the Aroma Framework
Core Methods and Classes Used by 'aroma.*' Packages Part of the Aroma Framework
Create Copy-Number Plots using karyoploteR functionality
Create Copy-Number Plots using karyoploteR functionality
Cross-target analysis of small molecule bioactivity
Cross-target analysis of small molecule bioactivity
Data Independent Acquisition Library Editing to Convert The Species
Data preprocessing and quality control for Illumina HumanMethylation450 and MethylationEPIC BeadChip
Data preprocessing and quality control for Illumina HumanMethylation450 and MethylationEPIC BeadChip
Data preprocessing and quality control for Illumina HumanMethylation450 and MethylationEPIC BeadChip (USC version)
DeepBlueR
DeepBlueR
DeepBlueR
DegNorm: degradation normalization for RNA-seq data
Detection of de novo deletion in targeted sequencing trios
Detection of de novo deletion in targeted sequencing trios
Detection of de novo deletion in targeted sequencing trios
Detection of ligand-protein interactions from 2D thermal profiles (DLPTP)
Detection of ligand-protein interactions from 2D thermal profiles (DLPTP)
Detection of subclonal SNVs in deep sequencing data.
Detection of subclonal SNVs in deep sequencing data.
Detection of subclonal SNVs in deep sequencing data.
Distributed computing by file or by range
Distributed computing by file or by range
Efficient algorithms for DNA methylation
Efficient compression and analysis of Hi-C Data
Efficient manipulation of biological strings
Efficient manipulation of biological strings
Efficient manipulation of biological strings
Enabling stream processing of large files
Explore and download data from the recount3 project
Explore and download data from the recount project
Explore and download data from the recount project
Exposome exploration and outcome data analysis
Exposome exploration and outcome data analysis
Extraction of Differential Gene Expression
Extraction of Differential Gene Expression
Extraction of Differential Gene Expression
Extract read count signals from bam files
Extract read count signals from bam files
Fast full-text and DNA search in NCBI RefSeq, UniProt-KB and genome sequence
FASTQ input and manipulation
FASTQ input and manipulation
Fast Reading and Processing of Common Gene Annotation and Next Generation Sequencing Format Files
Fast Reading and Processing of Common Gene Annotation and Next Generation Sequencing Format Files
Fast treatment of MACSQuantify FACS data
Fast treatment of MACSQuantify FACS data
FDR-controlled analysis of 2D-TPP experiments with replicates
FDR-controlled analysis of SPP experiments
Find SNV/Indel differences between two bam files with near relationship
Fitting cell population growth models
Fitting cell population growth models
Framework for Storing and Accessing Hi-C Data Through HDF Files
Framework for Storing and Accessing Hi-C Data Through HDF Files
Framework for Storing and Accessing Hi-C Data Through HDF Files
Framework for Storing and Accessing Hi-C Data Through HDF Files
Functionality to Read and Manipulate SomaLogic ADAT files
Functionality to Read and Manipulate SomaLogic ADAT files
Functionality Visualization for Motifs
Functions used to preprocess datasets stored in BioDataome
Further Utilities for Genomic Interactions
GCSscore: an R package for microarray analysis for Affymetrix/Thermo Fisher arrays
GCSscore: an R package for microarray analysis for Affymetrix/Thermo Fisher arrays
GEM: fast association study for the interplay of Gene, Environment and Methylation
GEMINI: Variational inference approach to infer genetic interactions from pairwise CRISPR screens
GEMINI: Variational inference approach to infer genetic interactions from pairwise CRISPR screens
Gene Expression Atlas query and gene set enrichment package.
Generate and Manipulate Genomic Ranges
Generating Tree Hierarchy Visualizations from Gene Expression Data
Generating Tree Hierarchy Visualizations from Gene Expression Data
Generating Various Molecular Representations for Chemicals, Proteins, DNAs, RNAs and Their Interactions
Generating Various Molecular Representations for Chemicals, Proteins, DNAs, RNAs and Their Interactions
Generating Various Molecular Representations for Chemicals, Proteins, DNAs/RNAs and Their Interactions
GeneRegionScan
Generic and Biological Sequences
Generic and Biological Sequences
Gene transfer format files for common ChIP-seq model organisms
GenoMetric Query Language for R/Bioconductor
GenoMetric Query Language for R/Bioconductor
Get data from NCBI Gene Expression Omnibus (GEO)
Get data from NCBI Gene Expression Omnibus (GEO)
Get data from NCBI Gene Expression Omnibus (GEO)
Get data from NCBI Gene Expression Omnibus (GEO)
gQTLBase: infrastructure for eQTL, mQTL and similar studies
GUI for limma Package with Affymetrix Microarrays
GUI for limma Package With Two Color Microarrays
Guitar
GWAS trait-associated SNP enrichment analyses in genomic intervals
HDF5 backend for DelayedArray objects
HDF5 backend for DelayedArray objects
HDF5 Compression Filters
HDF5 Delayed Array for Nifti Objects
HDF5 Delayed Array for Nifti Objects
HDF5 Delayed Array for Nifti Objects
HDF5 Delayed Array for Nifti Objects
Hierarchical Gating Pipeline for flow cytometry data
Hierarchical Gating Pipeline for flow cytometry data
High throughput prioritized acquisition and processing of tandem mass spectra
High-Throughput Sequence Analysis using the Aroma Framework
htslib high-throughput sequencing library as an R package
HTSlib high-throughput sequencing library as an R package
Human ChIP-seq peaks data from ENCODE and ROADMAP Epigenomics
Identifies false positives of CNV calling tools by using SNV calls
Identifies false positives of CNV calling tools by using SNV calls
Identify, Annotate and Visualize Alternative Splicing and Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data.
Identify, Annotate and Visualize Alternative Splicing and Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data.
Identifying differential DNA loops from chromatin topology data
Identifying differential DNA loops from chromatin topology data
Illumina methylation array analysis for large experiments
Illumina methylation array analysis for large experiments
ImagingAMARETTO: tools for interpreting multi-omics networks for relevance to clinical outcomes and radiographic and histopathology imaging-derived biomarkers
immune Cell Analysis Tool
immune Cell Analysis Tool
Implementation of the dot bracket annotations with Biostrings
Implementation of the dot bracket annotations with Biostrings
Import and summarize transcript-level estimates for transcript- and gene-level analysis
Import and summarize transcript-level estimates for transcript- and gene-level analysis
Importing a tRNAscan-SE result file as GRanges object
Importing a tRNAscan-SE result file as GRanges object
Importing a tRNAscan-SE result file as GRanges object
Importing from tRNAdb and mitotRNAdb as GRanges objects
Importing from tRNAdb and mitotRNAdb as GRanges objects
Import, Manipulate and Explore the Results of an 'Antares' Simulation
Import, Manipulate and Explore the Results of an 'Antares' Simulation
Import, Modify, and Export Motifs with R
Import, Modify, and Export Motifs with R
Import Omnipath network
Import Omnipath network
Import, process and analysis of Time-of-Flight Secondary Ion Mass Spectrometry (ToF-SIMS) imaging data
Infrastructure for microfluidic oscillatory washing-based ChIP
Infrastructure for representing and interacting with gated and ungated cytometry data sets.
Infrastructure for representing and interacting with gated and ungated cytometry data sets.
Integrating Functional Non-coding Datasets with Genetic Association Studies to Identify Candidate Regulatory SNPs
Integrating Functional Non-coding Datasets with Genetic Association Studies to Identify Candidate Regulatory SNPs
Interaction Based Homogeneity for Evaluating Gene Lists
Interval-Wise Testing for Omics Data
Interval-Wise Testing for Omics Data
Introduce *Ranges to bedtools users
Introduce *Ranges to bedtools users
KnowSeq R/Bioc package: Beyond the traditional Transcriptomic pipeline
KnowSeq R/Bioc package: Beyond the traditional Transcriptomic pipeline
Linear Models for Microarray Data
Linear Models for Microarray Data
Lipid and Oxylipin Biomarker Screening through Adduct Hierarchy Sequences
Lipid and Oxylipin Biomarker Screening through Adduct Hierarchy Sequences
LoomExperiment container
LoomExperiment container
LowMACA - Low frequency Mutation Analysis via Consensus Alignment
LowMACA - Low frequency Mutation Analysis via Consensus Alignment
LowMACA - Low frequency Mutation Analysis via Consensus Alignment
Manage Files Across Sessions
Manage Files Across Sessions
Manipulate Zarr archives as R objects
Manipulating and exploring protein and proteomics data
Manipulating and exploring protein and proteomics data
Manipulation of Codelink microarray data
Marker Enrichment Modeling (MEM)
Marker Enrichment Modeling (MEM)
Methods for accessing online The Cancer Genome Atlas (TCGA) data
Methods for accessing online The Cancer Genome Atlas (TCGA) data
Methods for Continuous Flow Cytometry
Methods for identifying small RNA loci from high-throughput sequencing data
Methods for reading CNAG files
Methods for reading CNAG files
Methods for reading dChip files
Methods for Reading dChip Files
Methods for Reading dChip Files
Methylation array and sequencing spatial analysis methods
Methylation array and sequencing spatial analysis methods
Microarray Analysis of Differential Expression
Microbial Assemblage Normalized Transcript Analysis
Microbial Assemblage Normalized Transcript Analysis
Mismatch Tolerant Maximum Common Substructure Searching
Mismatch Tolerant Maximum Common Substructure Searching
Mismatch Tolerant Maximum Common Substructure Searching
Molecular Informatics Toolkit for Compound-Protein Interaction in Drug Discovery
Molecular Informatics Toolkit for Compound-Protein Interaction in Drug Discovery
Molecular Informatics Toolkit for Compound-Protein Interaction in Drug Discovery
msgbsR: methylation sensitive genotyping by sequencing (MS-GBS) R functions
msgbsR: methylation sensitive genotyping by sequencing (MS-GBS) R functions
Multiple Sequence Alignment with MUSCLE
Multivariate Analysis of Genotype–Phenotype Association and Visualization for 3D Image
NDEx R client library
NDEx R client library
NGS Read Simulator for FFPE Tissue
NGS Read Simulator for FFPE Tissue
NIH / NCI Genomic Data Commons Access
NIH / NCI Genomic Data Commons Access
Normalization and difference calling in ChIP-seq data
Normalization and difference calling in ChIP-seq data
Normalization and reporting of Illumina SNP bead arrays
Nucleosome positioning package for R
Nucleosome positioning package for R
Nucleosome positioning package for R
Nucleosome positioning package for R
OnASSIs Ontology Annotation and Semantic SImilarity software
OnASSIs Ontology Annotation and Semantic SImilarity software
Open Reading Frames in Genomics
Open Reading Frames in Genomics
Open Reading Frames in Genomics
Operations on genomic intervals
Optimized Functional Annotation Of ChIP-seq Data
Optimized Functional Annotation Of ChIP-seq Data
Optimized Functional Annotation Of ChIP-seq Data
Package for CTDbase data query, visualization and downstream analysis
Package for CTDbase data query, visualization and downstream analysis
parser for netCDF, mzXML, mzData and mzML and mzIdentML files (mass spectrometry data)
parser for netCDF, mzXML, mzData and mzML and mzIdentML files (mass spectrometry data)
parser for netCDF, mzXML, mzData and mzML files (mass spectrometry data)
Parsing GenBank files into semantically useful objects
Parsing GenBank files into semantically useful objects
Parsing Illumina Microarray Output Files
Parsing Illumina Microarray Output Files
Perform Methylation Analysis on Next Generation Sequencing Data
Plot customizable linear genomes displaying arbitrary data
Plot customizable linear genomes displaying arbitrary data
Plot stacked logos for single or multiple DNA, RNA and amino acid sequence
Plot stacked logos for single or multiple DNA, RNA and amino acid sequence
Position-Dependent Kernel Association Test
Position-Dependent Kernel Association Test
Pre-process 1H-NMR FID signals
Pre-process 1H-NMR FID signals
Pre-process 1H-NMR FID signals
Pre-process 1H-NMR FID signals
Pre-process 1H-NMR FID signals
Preprocessing tools for oligonucleotide arrays
Preprocessing tools for oligonucleotide arrays
Preprocessing tools for oligonucleotide arrays
Preprocessing tools for oligonucleotide arrays.
Processing and Analysis of Affymetrix Oligonucleotide Arrays including Exon Arrays, Whole Genome Arrays and Plate Arrays
Processing of adductomic mass spectral datasets
Processing of adductomic mass spectral datasets
Propagating Uncertainty in Microarray Analysis(including Affymetrix tranditional 3' arrays and exon arrays and Human Transcriptome Array 2.0)
Proteomics Standard Initiative Common QUery InterfaCe
Proteomics Standard Initiative Common QUery InterfaCe
Provides access to pathogen annotation resources available on EuPathDB databases
Provides structure and functions for the analysis of OTU data
psygenet2r - An R package for querying PsyGeNET and to perform comorbidity studies in psychiatric disorders
psygenet2r - An R package for querying PsyGeNET and to perform comorbidity studies in psychiatric disorders
Putting the fun in LINCS L1000 data analysis
Putting the fun in LINCS L1000 data analysis
Putting the fun in LINCS L1000 data analysis
QA/QC of a gVCF or VCF file
QA/QC of a gVCF or VCF file
qiime2R
Quality Assessment Tools for Oxford Nanopore MinION data
Quality Assessment Tools for Oxford Nanopore MinION data
Quality Control Tool for High-Throughput Sequencing Data
Quality Control Tool for High-Throughput Sequencing Data
Quantitative comparison of multiple ChIP-seq datasets
Quasispecies Diversity
Quasispecies Diversity
query gene expression data and plots from BrainStars (B*)
Quick Read Quality Control
Quick Read Quality Control
R/Bioconductor Package for interfacing with Snaptron for rapid querying of expression counts
R/Bioconductor Package for interfacing with Snaptron for rapid querying of expression counts
R/Bioconductor Package for interfacing with Snaptron for rapid querying of expression counts
R Client for GA4GH API
R Client for Google Genomics API
R Client for Google Genomics API
R Client for Seven Bridges Genomics API (v1)
Read density map construction and accession. Visualization of ChIPSeq and RNASeq data sets
Read qPCR data
Read qPCR data
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression
Reorganization of rhdf5client code
Repetitive Element Methylation Prediction
Repetitive Element Methylation Prediction
Representation and manipulation of short genomic alignments
Representation and manipulation of short genomic alignments
R framework for exploration and analysis of respirometry data
R framework for exploration and analysis of respirometry data
RiboseQC, a Comprehensive Ribo-Seq Analysis Tool
RImmPort: Enabling Ready-for-analysis Immunology Research Data
RImmPort: Enabling Ready-for-analysis Immunology Research Data
RImmPort: Enabling Ready-for-analysis Immunology Research Data
R interface to a subset of OpenBabel functionalities
R interface to a subset of OpenBabel functionalities
R Interface to CoreArray Genomic Data Structure (GDS) Files
R Interface to CoreArray Genomic Data Structure (GDS) Files
R interface to genome annotation files and the UCSC genome browser
R Interface to HDF5
R Interface to the ProteomeXchange Repository
R Interface to the ProteomeXchange Repository
R Investigation of ChIP-chip Oligoarrays
RNASeqR: an R package for automated two-group RNA-Seq analysis workflow
RNASeqR: an R package for automated two-group RNA-Seq analysis workflow
RNASeqR: an R package for automated two-group RNA-Seq analysis workflow
RNA-Seq Utilities
RNA-Seq Utilities
RnBeads
Routines for the functional analysis of biological networks
Routines that don't belong to the core flow packages yet.
R package implementing the Cytoscape Exchange (CX) format
R SDK for BaseSpace RESTful API
rSFFreader reads in sff files generated by Roche 454 and Life Sciences Ion Torrent sequencers
rSFFreader reads in sff files generated by Roche 454 and Life Sciences Ion Torrent sequencers
S4 Classes for Single Cell Data
S4 Classes for Single Cell Data
S4 Classes for Single Cell Data
Scale4C: an R/Bioconductor package for scale-space transformation of 4C-seq data
Scale4C: an R/Bioconductor package for scale-space transformation of 4C-seq data
scDataviz: single cell dataviz and downstream analyses
scDataviz: single cell dataviz and downstream analyses
Segvis: A package for visualization of high throughput sequencing data along genomic segments
Set of tools to identify periodic occurrences of k-mers in DNA sequences
Seven Bridges Platform API Client and Common Workflow Language Tool Builder in R
Seven Bridges Platform API Client and Common Workflow Language Tool Builder in R
Seven Bridges Platform API Client and Common Workflow Language Tool Builder in R
Shiny app GUI wrapper for ggplot with built-in statistical analysis
Shiny app GUI wrapper for ggplot with built-in statistical analysis
Similarity measures for chemical compounds
Simple tiling array analysis of Affymetrix ChIP-chip data
Single-cell analysis toolkit for gene expression data in R
Single-Cell Analysis Toolkit for Gene Expression Data in R
Single-Cell Analysis Toolkit for Gene Expression Data in R
Single-Cell RNA-Seq Utilities
Single-Cell RNA-Seq Utilities
Single Cell Shiny Application for Analysing Single Cell Transcriptomics Data
Spatial Transcriptomics Analysis
Spatial Transcriptomics Analysis
Sscore2: an R package for microarray analysis for Affymetrix/Thermo Fisher arrays
Statistical Analysis of the GeneChip
systemPipeRdata: NGS workflow templates and sample data
systemPipeR: NGS workflow and report generation environment
systemPipeR: NGS workflow and report generation environment
TARgeted SEQuencing Experiment Quality Control
TARgeted SEQuencing Experiment Quality Control
Test Single Package Builder
Test Single Package Builder
Test Single Package Builder
The BRENDA Enzyme Database
The BRENDA Enzyme Database
The Cancer Genome Atlas Data Integration
The Cancer Genome Atlas Data Integration
Thermal proximity co-aggregation with R
Tidy Meta Profiles using Bioconductor and the Tidyverse
Tool for Evaluation of Cell Identity from Transcription Profiles
Tool for Evaluation of Cell Identity from Transcription Profiles
Tools for analysing methylation patterns at genomic tuples
Tools for computing, querying and storing linkage-disequilibrium data
Tools for curating, analyzing, and manipulating biological sequences
Tools for HELP data analysis
Tools for masking out problematic Affymetrix probes using VCF files and the oligo package
Tools for parsing Affymetrix data files
Tools for processing of high-dimensional cytometry data
Tools for processing of high-dimensional cytometry data
Tools for qPLEX-RIME data analysis
Tools for qPLEX-RIME data analysis
Tools for the Differential Analysis of Proteins Abundance with R
Tools for the Differential Analysis of Proteins Abundance with R
Tools for the Differential Analysis of Proteins Abundance with R
Tools for the Efficient Analysis of High-Resolution Genomics Data
Tools for the Efficient Analysis of High-Resolution Genomics Data
Tools for Working With Synteny Objects
Tools for Working With Synteny Objects
Transcriptome-guided quality assessment of m6A-seq data
Transcript Quantification Import with Automatic Metadata
Transcript Quantification Import with Automatic Metadata
Transform public data resources into Bioconductor Data Structures
Transform public data resources into Bioconductor Data Structures
Transform public proteomics data resources into Bioconductor Data Structures
Transform public proteomics data resources into Bioconductor Data Structures
TRONCO, an R package for TRanslational ONCOlogy
TRONCO, an R package for TRanslational ONCOlogy
Turn Bioconductor objects into tidy data frames
Turn Bioconductor objects into tidy data frames
TVTB: The VCF Tool Box
TVTB: The VCF Tool Box
uORF prediction in R
User Friendly Single-Cell and Bulk RNA Sequencing Visualization
User Friendly Single-Cell and Bulk RNA Sequencing Visualization
User Friendly Single-Cell and Bulk RNA Sequencing Visualization
Utilities for handling genomic interaction data
Utilities for handling genomic interaction data
Utilities for handling genomic interaction data
Utilities for Handling Single-Cell Droplet Data
Utilities for Handling Single-Cell Droplet Data
Variant annotations for structural variants
Variant annotations for structural variants
Variant annotations for structural variants
Very simple high level analysis of Affymetrix data
Visualization and annotation of read signal over genomic ranges with profileplyr
Visualization and annotation of read signal over genomic ranges with profileplyr
Visualization of highly multiplexed imaging cytometry data in R
Visualization of highly multiplexed imaging cytometry data in R
Visualization of highly multiplexed imaging cytometry data in R
Working with Illumina Basecalling and Demultiplexing input and output files
Working with Illumina Basecalling and Demultiplexing input and output files
Working with modified nucleotide sequences
Working with modified nucleotide sequences
You Only Lookup One (small part of an otherwise large matrix)
You Only Lookup One (small part of an otherwise large matrix)