Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
bioconductor.org "CellBasedAssays" keyword
Top 5.5% on bioconductor.org
3 versions - Latest release: about 1 month ago - 8 dependent packages - 34.1 thousand downloads total - 220 stars on GitHub - 1 maintainer
iSEE 2.16.0
Interactive SummarizedExperiment Explorer3 versions - Latest release: about 1 month ago - 8 dependent packages - 34.1 thousand downloads total - 220 stars on GitHub - 1 maintainer
eiR 1.44.0
Accelerated similarity searching of small molecules3 versions - Latest release: about 1 month ago - 15.8 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 3.3% on bioconductor.org
3 versions - Latest release: about 1 month ago - 4 dependent packages - 133 thousand downloads total - 67 stars on GitHub - 1 maintainer
destiny 3.18.0
Creates diffusion maps3 versions - Latest release: about 1 month ago - 4 dependent packages - 133 thousand downloads total - 67 stars on GitHub - 1 maintainer
MAPFX 1.0.0
MAssively Parallel Flow cytometry Xplorer (MAPFX): A Toolbox for Analysing Data from the Massivel...1 version - Latest release: about 1 month ago - 185 downloads total - 0 stars on GitHub - 1 maintainer
iSEEfier 1.0.0
Streamlining the creation of initial states for starting an iSEE instance1 version - Latest release: about 1 month ago - 295 downloads total - 0 stars on GitHub - 1 maintainer
Top 0.8% on bioconductor.org
5 versions - Latest release: about 1 month ago - 51 dependent packages - 4.77 million downloads total - 1 maintainer
flowCore 2.16.0
flowCore: Basic structures for flow cytometry data5 versions - Latest release: about 1 month ago - 51 dependent packages - 4.77 million downloads total - 1 maintainer
MICSQTL 1.0.0
MICSQTL (Multi-omic deconvolution, Integration and Cell-type-specific Quantitative Trait Loci)2 versions - Latest release: 7 months ago - 1.03 thousand downloads total - 1 maintainer
Top 6.3% on bioconductor.org
3 versions - Latest release: 7 months ago - 8 dependent packages - 482 thousand downloads total - 13 stars on GitHub - 1 maintainer
ChemmineR 3.54.0
Cheminformatics Toolkit for R3 versions - Latest release: 7 months ago - 8 dependent packages - 482 thousand downloads total - 13 stars on GitHub - 1 maintainer
censcyt 1.10.0
Differential abundance analysis with a right censored covariate in high-dimensional cytometry3 versions - Latest release: 7 months ago - 3.43 thousand downloads total - 0 stars on GitHub - 1 maintainer
CytoGLMM 1.10.0
Conditional Differential Analysis for Flow and Mass Cytometry Experiments3 versions - Latest release: 6 months ago - 1 dependent package - 3.99 thousand downloads total - 2 stars on GitHub - 1 maintainer
bioassayR 1.40.0
Cross-target analysis of small molecule bioactivity3 versions - Latest release: 6 months ago - 24.6 thousand downloads total - 5 stars on GitHub - 1 maintainer
lisaClust 1.10.1
lisaClust: Clustering of Local Indicators of Spatial Association3 versions - Latest release: 6 months ago - 1 dependent package - 5.33 thousand downloads total - 3 stars on GitHub - 1 maintainer
spicyR 1.14.3
Spatial analysis of in situ cytometry data4 versions - Latest release: 4 months ago - 2 dependent packages - 7.73 thousand downloads total - 8 stars on GitHub - 1 maintainer
RNAinteract 1.50.0
Estimate Pairwise Interactions from multidimensional features3 versions - Latest release: 7 months ago - 23.7 thousand downloads total - 1 maintainer
LineagePulse 1.21.0 removed
Differential expression analysis and model fitting for single-cell RNA-seq data2 versions - Latest release: 7 months ago - 7.08 thousand downloads total - 11 stars on GitHub - 1 maintainer
infinityFlow 1.12.0
Augmenting Massively Parallel Cytometry Experiments Using Multivariate Non-Linear Regressions3 versions - Latest release: 7 months ago - 4.46 thousand downloads total - 1 maintainer
contiBAIT 1.30.0
Improves Early Build Genome Assemblies using Strand-Seq Data3 versions - Latest release: 7 months ago - 10.7 thousand downloads total - 1 maintainer
Top 9.4% on bioconductor.org
3 versions - Latest release: 7 months ago - 26.5 thousand downloads total - 1 maintainer
RTCA 1.54.0
Open-source toolkit to analyse data from xCELLigence System (RTCA)3 versions - Latest release: 7 months ago - 26.5 thousand downloads total - 1 maintainer
NanoStringNCTools 1.10.1
NanoString nCounter Tools4 versions - Latest release: about 1 month ago - 2 dependent packages - 14.3 thousand downloads total - 1 maintainer
flowVS 1.34.0
Variance stabilization in flow cytometry (and microarrays)3 versions - Latest release: 7 months ago - 16 thousand downloads total - 1 maintainer
gespeR 1.34.0
Gene-Specific Phenotype EstimatoR3 versions - Latest release: 7 months ago - 16.3 thousand downloads total - 1 maintainer
flowBeads 1.40.0
flowBeads: Analysis of flow bead data3 versions - Latest release: 7 months ago - 18.4 thousand downloads total - 1 maintainer
netprioR 1.28.0
A model for network-based prioritisation of genes3 versions - Latest release: 7 months ago - 9.03 thousand downloads total - 1 maintainer
CNORdt 1.44.0
Add-on to CellNOptR: Discretized time treatments3 versions - Latest release: 7 months ago - 21.7 thousand downloads total - 1 maintainer
flowCut 1.12.0
Automated Removal of Outlier Events and Flagging of Files Based on Time Versus Fluorescence Analysis3 versions - Latest release: 7 months ago - 6.64 thousand downloads total - 1 maintainer
SpatialOmicsOverlay 1.2.1
Spatial Overlay for Omic Data from Nanostring GeoMx Data3 versions - Latest release: 7 months ago - 1.68 thousand downloads total - 1 maintainer
flowPlots 1.50.0
flowPlots: analysis plots and data class for gated flow cytometry data3 versions - Latest release: 7 months ago - 23.7 thousand downloads total - 1 maintainer
rcellminer 2.24.0
rcellminer: Molecular Profiles, Drug Response, and Chemical Structures for the NCI-60 Cell Lines3 versions - Latest release: 7 months ago - 15.7 thousand downloads total - 3 maintainers
immunoClust 1.34.0
immunoClust - Automated Pipeline for Population Detection in Flow Cytometry3 versions - Latest release: 7 months ago - 13.4 thousand downloads total - 1 maintainer
CytoDx 1.22.0
Robust prediction of clinical outcomes using cytometry data without cell gating3 versions - Latest release: 7 months ago - 7.94 thousand downloads total - 1 maintainer
Top 8.9% on bioconductor.org
3 versions - Latest release: 7 months ago - 6 dependent packages - 37.4 thousand downloads total - 1 maintainer
CellNOptR 1.48.0
Training of boolean logic models of signalling networks using prior knowledge networks and pertur...3 versions - Latest release: 7 months ago - 6 dependent packages - 37.4 thousand downloads total - 1 maintainer
Dino 1.8.0
Normalization of Single-Cell mRNA Sequencing Data3 versions - Latest release: 7 months ago - 2.77 thousand downloads total - 8 stars on GitHub - 1 maintainer
FuseSOM 1.4.0
A Correlation Based Multiview Self Organizing Maps Clustering For IMC Datasets3 versions - Latest release: 7 months ago - 1.79 thousand downloads total - 1 stars on GitHub - 1 maintainer
GRmetrics 1.28.0
Calculate growth-rate inhibition (GR) metrics3 versions - Latest release: 7 months ago - 15.7 thousand downloads total - 1 stars on GitHub - 2 maintainers
flowCyBar 1.38.0
Analyze flow cytometric data using gate information3 versions - Latest release: 7 months ago - 16.4 thousand downloads total - 1 maintainer
flowCHIC 1.36.0
Analyze flow cytometric data using histogram information3 versions - Latest release: 7 months ago - 15.6 thousand downloads total - 1 maintainer
synlet 2.2.0
Hits Selection for Synthetic Lethal RNAi Screen Data3 versions - Latest release: 7 months ago - 10.8 thousand downloads total - 1 maintainer
MetaCyto 1.24.0
MetaCyto: A package for meta-analysis of cytometry data3 versions - Latest release: 7 months ago - 9.82 thousand downloads total - 1 maintainer
DepecheR 1.18.0
Determination of essential phenotypic elements of clusters in high-dimensional entities3 versions - Latest release: 7 months ago - 1 dependent package - 16 thousand downloads total - 1 maintainer
flowSpecs 1.16.0
Tools for processing of high-dimensional cytometry data3 versions - Latest release: 7 months ago - 5.55 thousand downloads total - 6 stars on GitHub - 1 maintainer
CNORode 1.44.0
ODE add-on to CellNOptR3 versions - Latest release: 7 months ago - 1 dependent package - 26.9 thousand downloads total - 1 maintainer
CFAssay 1.36.0
Statistical analysis for the Colony Formation Assay3 versions - Latest release: 7 months ago - 15.4 thousand downloads total - 1 maintainer
Top 6.1% on bioconductor.org
3 versions - Latest release: 7 months ago - 1 dependent package - 51.3 thousand downloads total - 5 stars on GitHub - 1 maintainer
fmcsR 1.44.0
Mismatch Tolerant Maximum Common Substructure Searching3 versions - Latest release: 7 months ago - 1 dependent package - 51.3 thousand downloads total - 5 stars on GitHub - 1 maintainer
sights 1.28.0
Statistics and dIagnostic Graphs for HTS3 versions - Latest release: 7 months ago - 9.64 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 10.0% on bioconductor.org
2 versions - Latest release: 7 months ago - 26.3 thousand downloads total - 1 maintainer
imageHTS 1.52.0 removed
Analysis of high-throughput microscopy-based screens2 versions - Latest release: 7 months ago - 26.3 thousand downloads total - 1 maintainer
GeomxTools 3.6.2
NanoString GeoMx Tools4 versions - Latest release: 3 months ago - 3 dependent packages - 15.9 thousand downloads total - 1 maintainer
flowBin 1.38.0
Combining multitube flow cytometry data by binning3 versions - Latest release: 7 months ago - 17.2 thousand downloads total - 1 maintainer
flowTime 1.26.0
Annotation and analysis of biological dynamical systems using flow cytometry3 versions - Latest release: 7 months ago - 9.36 thousand downloads total - 1 maintainer
Top 7.7% on bioconductor.org
3 versions - Latest release: 7 months ago - 2 dependent packages - 34.9 thousand downloads total - 2 maintainers
flowFP 1.60.0
Fingerprinting for Flow Cytometry3 versions - Latest release: 7 months ago - 2 dependent packages - 34.9 thousand downloads total - 2 maintainers
staRank 1.44.0
Stability Ranking3 versions - Latest release: 7 months ago - 19.6 thousand downloads total - 1 maintainer
CNORfeeder 1.42.0
Integration of CellNOptR to add missing links3 versions - Latest release: 7 months ago - 21.5 thousand downloads total - 1 maintainer
cicero 1.20.0
Predict cis-co-accessibility from single-cell chromatin accessibility data3 versions - Latest release: 7 months ago - 21.1 thousand downloads total - 1 maintainer
PANR 1.48.0
Posterior association networks and functional modules inferred from rich phenotypes of gene pertu...3 versions - Latest release: 7 months ago - 21.8 thousand downloads total - 1 maintainer
diffcyt 1.22.1
Differential discovery in high-dimensional cytometry via high-resolution clustering4 versions - Latest release: about 2 months ago - 5 dependent packages - 26.6 thousand downloads total - 18 stars on GitHub - 1 maintainer
flowGraph 1.10.0
Identifying differential cell populations in flow cytometry data accounting for marker frequency3 versions - Latest release: 7 months ago - 3.23 thousand downloads total - 0 stars on GitHub - 1 maintainer
treeclimbR 1.0.0
An algorithm to find optimal signal levels in a tree2 versions - Latest release: 18 days ago - 312 downloads total - 18 stars on GitHub - 1 maintainer
MPRAnalyze 1.22.0
Statistical Analysis of MPRA data3 versions - Latest release: 17 days ago - 6.82 thousand downloads total - 10 stars on GitHub - 1 maintainer
spatialHeatmap 2.10.0
spatialHeatmap8 versions - Latest release: 19 days ago - 5.78 thousand downloads total - 4 stars on GitHub - 1 maintainer
iSEEu 1.15.1
iSEE Universe3 versions - Latest release: about 1 month ago - 1 dependent package - 6.84 thousand downloads total - 10 stars on GitHub - 1 maintainer
scp 1.14.0
Mass Spectrometry-Based Single-Cell Proteomics Data Analysis3 versions - Latest release: 22 days ago - 5.67 thousand downloads total - 18 stars on GitHub - 1 maintainer
Top 2.2% on bioconductor.org
3 versions - Latest release: 24 days ago - 11 dependent packages - 280 thousand downloads total - 1 maintainer
flowViz 1.68.0
Visualization for flow cytometry3 versions - Latest release: 24 days ago - 11 dependent packages - 280 thousand downloads total - 1 maintainer
CDI 1.2.0
Clustering Deviation Index (CDI)3 versions - Latest release: 24 days ago - 778 downloads total - 7 stars on GitHub - 1 maintainer
Top 2.9% on bioconductor.org
4 versions - Latest release: 25 days ago - 9 dependent packages - 183 thousand downloads total - 15 stars on GitHub - 2 maintainers
flowStats 4.16.0
Statistical methods for the analysis of flow cytometry data4 versions - Latest release: 25 days ago - 9 dependent packages - 183 thousand downloads total - 15 stars on GitHub - 2 maintainers
scFeatures 1.4.0
scFeatures: Multi-view representations of single-cell and spatial data for disease outcome predic...4 versions - Latest release: 25 days ago - 1.45 thousand downloads total - 10 stars on GitHub - 1 maintainer
Top 3.0% on bioconductor.org
3 versions - Latest release: 25 days ago - 2 dependent packages - 217 thousand downloads total - 9 stars on GitHub - 1 maintainer
ChemmineOB 1.42.0
R interface to a subset of OpenBabel functionalities3 versions - Latest release: 25 days ago - 2 dependent packages - 217 thousand downloads total - 9 stars on GitHub - 1 maintainer
Top 3.4% on bioconductor.org
3 versions - Latest release: 25 days ago - 3 dependent packages - 128 thousand downloads total - 1 maintainer
FlowSOM 2.12.0
Using self-organizing maps for visualization and interpretation of cytometry data3 versions - Latest release: 25 days ago - 3 dependent packages - 128 thousand downloads total - 1 maintainer
Top 6.0% on bioconductor.org
3 versions - Latest release: 26 days ago - 4 dependent packages - 59.9 thousand downloads total - 1 maintainer
cellHTS2 2.68.0
Analysis of cell-based screens - revised version of cellHTS3 versions - Latest release: 26 days ago - 4 dependent packages - 59.9 thousand downloads total - 1 maintainer
UCell 2.8.0
Rank-based signature enrichment analysis for single-cell data5 versions - Latest release: 29 days ago - 1 dependent package - 29.3 thousand downloads total - 111 stars on GitHub - 1 maintainer
Top 3.8% on bioconductor.org
4 versions - Latest release: about 1 month ago - 9 dependent packages - 117 thousand downloads total - 53 stars on GitHub - 1 maintainer
ggcyto 1.32.0
Visualize Cytometry data with ggplot4 versions - Latest release: about 1 month ago - 9 dependent packages - 117 thousand downloads total - 53 stars on GitHub - 1 maintainer
MIMOSA 1.37.0 removed
Mixture Models for Single-Cell Assays1 version - Latest release: 8 months ago - 15.6 thousand downloads total - 1 maintainer
Related Keywords
Software
70
ImmunoOncology
44
Visualization
34
FlowCytometry
26
Clustering
23
SingleCell
23
Proteomics
19
CellBiology
17
GeneExpression
14
Preprocessing
10
Transcriptomics
10
Infrastructure
10
DataImport
10
Sequencing
8
StatisticalMethod
7
FeatureExtraction
7
RNASeq
7
Spatial
7
TimeCourse
7
Transcription
7
MicrotitrePlateAssay
7
Regression
5
QualityControl
5
Pharmacogenomics
5
Pharmacogenetics
5
Metabolomics
5
Cheminformatics
5
DataRepresentation
5
Normalization
4
BiomedicalInformatics
4
DimensionReduction
4
Classification
3
Survival
3
Network
3
GUI
3
GeneTarget
3
DifferentialExpression
3
ProprietaryPlatforms
3
Microarray
2
Bioinformatics
2
mRNAMicroarray
2
MultipleComparison
2
ExperimentalDesign
2
NetworkInference
2
Genetics
2
ATACSeq
2
r
2
ShinyApps
2
GraphAndNetwork
2
single-cell
2
hacktoberfest
2
GeneSetEnrichment
1
Pathways
1
software
1
BatchEffect
1
proteomics
1
mass-spectrometry
1
bioconductor
1
MassSpectrometry
1
TissueMicroarray
1
DNASeq
1
GeneRegulation
1
Epigenetics
1
feature-extraction
1
gene-expression
1
gui
1
human-cell-atlas
1
shiny
1
transcriptomics
1
visualization
1
dimension-reduction
1
clustering
1
diffusion-maps
1
dimensionality-reduction
1
Coverage
1
GenomeAssembly
1
WholeGenome
1
CopyNumberVariation
1
SystemsBiology
1
aCGH
1
miRNA
1