|
BiocNeighbors
Bioc
|
Nearest Neighbor Detection for Bioconductor Packages
|
software |
2.6.0 |
|
BiocParallel
Bioc
|
Bioconductor facilities for parallel evaluation
|
software |
1.46.0 |
|
BiocSingular
Bioc
|
Singular Value Decomposition for Bioconductor Packages
|
software |
1.28.1 |
|
BumpyMatrix
Bioc
|
Bumpy Matrix of Non-Scalar Objects
|
software |
1.20.0 |
|
DelayedArray
Bioc
|
A unified framework for working transparently with on-disk and
in-memory array-like datasets
|
software |
0.38.2 |
|
DelayedMatrixStats
Bioc
|
Functions that Apply to Rows and Columns of 'DelayedMatrix'
Objects
|
software |
1.34.0 |
|
DelayedRandomArray
Bioc
|
Delayed Arrays of Random Values
|
software |
1.20.0 |
|
DropletTestFiles
Bioc
|
Test Files for Single-Cell Droplet Utilities
|
experiment |
1.22.0 |
|
DropletUtils
Bioc
|
Utilities for Handling Single-Cell Droplet Data
|
software |
1.32.1 |
|
InteractionSet
Bioc
|
Base Classes for Storing Genomic Interaction Data
|
software |
1.40.0 |
|
MouseGastrulationData
Bioc
|
Single-Cell -omics Data across Mouse Gastrulation and Early
Organogenesis
|
experiment |
1.26.0 |
|
OSCA
Bioc removed
|
Orchestrating Single Cell Analysis with Bioconductor
|
|
1.22.0 |
|
OSCA.advanced
Bioc removed
|
Advanced Single-Cell Analysis
|
|
1.20.0 |
|
OSCA.basic
Bioc removed
|
Single-Cell Analysis Basics
|
|
1.20.0 |
|
OSCA.intro
Bioc removed
|
Introduction to OSCA
|
|
1.20.0 |
|
OSCA.multisample
Bioc removed
|
OSCA for Multiple Samples
|
|
1.20.0 |
|
OSCA.workflows
Bioc removed
|
OSCA Workflows
|
|
1.20.0 |
|
PCAtools
Bioc
|
PCAtools: Everything Principal Components Analysis
|
software |
2.24.0 |
|
ResidualMatrix
Bioc
|
Creating a DelayedMatrix of Regression Residuals
|
software |
1.22.0 |
|
Rigraphlib
Bioc
|
igraph library as an R package
|
software |
1.4.0 |
|
RnaSeqGeneEdgeRQL
Bioc
|
Gene-level RNA-seq differential expression and pathway analysis
using Rsubread and the edgeR quasi-likelihood pipeline
|
workflows |
1.36.0 |
|
S4Vectors
Bioc
|
Foundation of vector-like and list-like containers in
Bioconductor
|
software |
0.50.3 |
|
SQLDataFrame
Bioc
|
Representation of SQL tables in DataFrame metaphor
|
software |
1.26.0 |
|
ScaledMatrix
Bioc
|
Creating a DelayedMatrix of Scaled and Centered Values
|
software |
1.20.0 |
|
SingleCellExperiment
Bioc
|
S4 Classes for Single Cell Data
|
software |
1.34.0 |
|
SingleR
Bioc
|
Reference-Based Single-Cell RNA-Seq Annotation
|
software |
2.14.2 |
|
SingleRBook
Bioc removed
|
The Book of SingleR
|
|
1.22.0 |
|
TENxBrainData
Bioc
|
Data from the 10X 1.3 Million Brain Cell Study
|
experiment |
1.32.0 |
|
TSCAN
Bioc
|
Tools for Single-Cell Analysis
|
software |
1.50.0 |
|
TileDBArray
Bioc
|
Using TileDB as a DelayedArray Backend
|
software |
1.22.0 |
|
TrajectoryUtils
Bioc
|
Single-Cell Trajectory Analysis Utilities
|
software |
1.20.0 |
|
alabaster
Bioc
|
Umbrella for the Alabaster Framework
|
software |
1.12.0 |
|
alabaster.base
Bioc
|
Save Bioconductor Objects to File
|
software |
1.12.1 |
|
alabaster.bumpy
Bioc
|
Save and Load BumpyMatrices to/from file
|
software |
1.12.0 |
|
alabaster.files
Bioc
|
Wrappers to Save Common File Formats
|
software |
1.10.0 |
|
alabaster.mae
Bioc
|
Load and Save MultiAssayExperiments
|
software |
1.12.0 |
|
alabaster.matrix
Bioc
|
Load and Save Artifacts from File
|
software |
1.12.0 |
|
alabaster.ranges
Bioc
|
Load and Save Ranges-related Artifacts from File
|
software |
1.12.0 |
|
alabaster.sce
Bioc
|
Load and Save SingleCellExperiment from File
|
software |
1.12.0 |
|
alabaster.schemas
Bioc
|
Schemas for the Alabaster Framework
|
software |
1.12.0 |
|
alabaster.se
Bioc
|
Load and Save SummarizedExperiments from File
|
software |
1.12.0 |
|
alabaster.spatial
Bioc
|
Save and Load Spatial 'Omics Data to/from File
|
software |
1.12.0 |
|
alabaster.string
Bioc
|
Save and Load Biostrings to/from File
|
software |
1.12.0 |
|
alabaster.vcf
Bioc
|
Save and Load Variant Data to/from File
|
software |
1.12.0 |
|
aroma.light
Bioc
|
Light-Weight Methods for Normalization and Visualization of
Microarray Data using Only Basic R Data Types
|
software |
3.42.0 |
|
assorthead
Bioc
|
Assorted Header-Only C++ Libraries
|
software |
1.6.4 |
|
augere.core
Bioc removed
|
Core Utilities for Automatically Generated Reports
|
|
0.99.3 |
|
augere.de
Bioc removed
|
Automatic Generation of Differential Expression Analyses
|
|
0.99.2 |
|
augere.gsea
Bioc removed
|
Automatic Generation of Gene Set Enrichment Analyses
|
|
0.99.1 |
|
augere.screen
Bioc removed
|
Automatic Generation of Functional Screen Analyses
|
|
0.99.2 |
|
augere.solo
Bioc removed
|
Automatic Generation of Single-Cell Analyses
|
|
0.99.3 |
|
basilisk
Bioc
|
Freezing Python Dependencies Inside Bioconductor Packages
|
software |
1.24.0 |
|
basilisk.utils
Bioc
|
Centralized Conda Installation for Bioconductor Packages
|
software |
1.24.0 |
|
batchelor
Bioc
|
Single-Cell Batch Correction Methods
|
software |
1.28.0 |
|
beachmat
Bioc
|
Compiling Bioconductor to Handle Each Matrix Type
|
software |
2.28.0 |
|
beachmat.hdf5
Bioc
|
beachmat bindings for HDF5-backed matrices
|
software |
1.10.0 |
|
beachmat.tiledb
Bioc
|
beachmat bindings for TileDB-backed matrices
|
software |
1.4.0 |
|
biocmake
Bioc
|
CMake for Bioconductor
|
software |
1.4.0 |
|
bluster
Bioc
|
Clustering Algorithms for Bioconductor
|
software |
1.22.0 |
|
bsseq
Bioc
|
Analyze, manage and store whole-genome methylation data
|
software |
1.48.0 |
|
celldex
Bioc
|
Index of Reference Cell Type Datasets
|
experiment |
1.22.0 |
|
chihaya
Bioc
|
Save Delayed Operations to a HDF5 File
|
software |
1.12.0 |
|
chipseqDB
Bioc
|
A Bioconductor Workflow to Detect Differential Binding in
ChIP-seq Data
|
workflows |
1.36.0 |
|
chipseqDBData
Bioc
|
Data for the chipseqDB Workflow
|
experiment |
1.28.0 |
|
crisprScore
Bioc
|
On-Target and Off-Target Scoring Algorithms for CRISPR gRNAs
|
software |
1.16.0 |
|
csaw
Bioc
|
ChIP-Seq Analysis with Windows
|
software |
1.46.0 |
|
csawBook
Bioc removed
|
The Book of csaw
|
|
1.20.0 |
|
csawUsersGuide
Bioc
|
csaw User's Guide
|
workflows |
1.28.0 |
|
cydar
Bioc
|
Using Mass Cytometry for Differential Abundance Analyses
|
software |
1.36.0 |
|
diffHic
Bioc
|
Differential Analysis of Hi-C Data
|
software |
1.44.0 |
|
dir.expiry
Bioc
|
Managing Expiration for Cache Directories
|
software |
1.20.0 |
|
epiregulon
Bioc
|
Gene regulatory network inference from single cell epigenomic
data
|
software |
2.2.0 |
|
gesel
Bioc removed
|
Search for Interesting Gene Sets
|
|
0.99.5 |
|
gypsum
Bioc
|
Interface to the gypsum REST API
|
software |
1.8.0 |
|
iSEE
Bioc
|
Interactive SummarizedExperiment Explorer
|
software |
2.24.0 |
|
iSEEhex
Bioc
|
iSEE extension for summarising data points in hexagonal bins
|
software |
1.14.0 |
|
iSEEu
Bioc
|
iSEE Universe
|
software |
1.24.0 |
|
limma
Bioc
|
Linear Models for Microarray and Omics Data
|
software |
3.68.5 |
|
metapod
Bioc
|
Meta-Analyses on P-Values of Differential Analyses
|
software |
1.20.0 |
|
mumosa
Bioc
|
Multi-Modal Single-Cell Analysis Methods
|
software |
1.20.0 |
|
rebook
Bioc
|
Re-using Content in Bioconductor Books
|
software |
1.22.0 |
|
scDblFinder
Bioc
|
scDblFinder
|
software |
1.26.9 |
|
scMultiome
Bioc
|
Collection of Public Single-Cell Multiome (scATAC + scRNAseq)
Datasets
|
experiment |
1.12.0 |
|
scRNAseq
Bioc
|
Collection of Public Single-Cell RNA-Seq Datasets
|
experiment |
2.26.0 |
|
scater
Bioc
|
Single-Cell Analysis Toolkit for Gene Expression Data in R
|
software |
1.40.2 |
|
scran
Bioc
|
Methods for Single-Cell RNA-Seq Data Analysis
|
software |
1.40.0 |
|
scrapbook
Bioc removed
|
Single-cell RNA-seq analyses with scrapper
|
|
1.0.0 |
|
scrapper
Bioc
|
Bindings to C++ Libraries for Single-Cell Analysis
|
software |
1.6.3 |
|
scrapple
Bioc removed
|
User-Friendly Functions for Single-Cell RNA-Seq Analysis
|
|
0.99.0 |
|
screenCounter
Bioc
|
Counting Reads in High-Throughput Sequencing Screens
|
software |
1.12.0 |
|
scuttle
Bioc
|
Legacy Utilities for Single-Cell RNA-Seq Analysis
|
software |
1.22.0 |
|
simpleSingleCell
Bioc
|
A step-by-step workflow for low-level analysis of single-cell
RNA-seq data with Bioconductor
|
workflows |
1.36.0 |
|
snifter
Bioc
|
R wrapper for the python openTSNE library
|
software |
1.22.0 |
|
velociraptor
Bioc
|
Toolkit for Single-Cell Velocity
|
software |
1.22.0 |
|
zellkonverter
Bioc
|
Conversion Between scRNA-seq Objects
|
software |
1.22.0 |