bioconductor.org "AlternativeSplicing" keyword
View the packages on the bioconductor.org package registry that are tagged with the "AlternativeSplicing" keyword.
Top 0.3% on bioconductor.org
14 versions - Latest release: 2 months ago - 322 dependent packages - 5.97 million downloads total - 1 maintainer
limma 3.64.1
Linear Models for Microarray and Omics Data14 versions - Latest release: 2 months ago - 322 dependent packages - 5.97 million downloads total - 1 maintainer
Top 0.6% on bioconductor.org
23 versions - Latest release: 16 days ago - 181 dependent packages - 3.6 million downloads total - 4 maintainers
edgeR 4.6.3
Empirical Analysis of Digital Gene Expression Data in R23 versions - Latest release: 16 days ago - 181 dependent packages - 3.6 million downloads total - 4 maintainers
FLAMES 2.2.0
FLAMES: Full Length Analysis of Mutations and Splicing in long read RNA-seq data7 versions - Latest release: 3 months ago - 11 thousand downloads total - 38 stars on GitHub - 1 maintainer
proActiv 1.18.0
Estimate Promoter Activity from RNA-Seq data5 versions - Latest release: 2 months ago - 8.72 thousand downloads total - 53 stars on GitHub - 1 maintainer
wiggleplotr 1.32.0
Make read coverage plots from BigWig files5 versions - Latest release: 3 months ago - 1 dependent package - 21.8 thousand downloads total - 1 maintainer
GSReg 1.42.0
Gene Set Regulation (GS-Reg)5 versions - Latest release: 2 months ago - 19 thousand downloads total - 2 maintainers
fishpond 2.14.0
Fishpond: downstream methods and tools for expression data5 versions - Latest release: 2 months ago - 1 dependent package - 36.4 thousand downloads total - 29 stars on GitHub - 1 maintainer
ASpli 2.18.0
Analysis of Alternative Splicing Using RNA-Seq5 versions - Latest release: 3 months ago - 1 dependent package - 23.6 thousand downloads total - 1 maintainer
maser 1.26.0
Mapping Alternative Splicing Events to pRoteins5 versions - Latest release: 3 months ago - 17.5 thousand downloads total - 18 stars on GitHub - 1 maintainer
psichomics 1.34.0
Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation6 versions - Latest release: 3 months ago - 18.9 thousand downloads total - 33 stars on GitHub - 1 maintainer
OutSplice 1.8.0
Comparison of Splicing Events between Tumor and Normal Samples5 versions - Latest release: 3 months ago - 4.45 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 7.6% on bioconductor.org
5 versions - Latest release: 3 months ago - 1 dependent package - 47.9 thousand downloads total - 1 maintainer
DRIMSeq 1.36.0
Differential transcript usage and tuQTL analyses with Dirichlet-multinomial model in RNA-seq5 versions - Latest release: 3 months ago - 1 dependent package - 47.9 thousand downloads total - 1 maintainer
IMAS 1.32.0
Integrative analysis of Multi-omics data for Alternative Splicing5 versions - Latest release: 3 months ago - 13.9 thousand downloads total - 1 maintainer
erccdashboard 1.42.0
Assess Differential Gene Expression Experiments with ERCC Controls5 versions - Latest release: 3 months ago - 24 thousand downloads total - 7 stars on GitHub - 1 maintainer
regsplice 1.34.1
L1-regularization based methods for detection of differential splicing7 versions - Latest release: about 2 months ago - 13.6 thousand downloads total - 3 stars on GitHub - 1 maintainer
Ularcirc 1.26.0
Shiny app for canonical and back splicing analysis (i.e. circular and mRNA analysis)5 versions - Latest release: 3 months ago - 10.4 thousand downloads total - 1 maintainer
SpliceWiz 1.10.1
interactive analysis and visualization of alternative splicing in R11 versions - Latest release: about 2 months ago - 7.49 thousand downloads total - 18 stars on GitHub - 1 maintainer
GeneStructureTools 1.28.0
Tools for spliced gene structure manipulation and analysis5 versions - Latest release: 3 months ago - 14.1 thousand downloads total - 1 maintainer
sitadela 1.16.0
An R package for the easy provision of simple but complete tab-delimited genomic annotation from ...5 versions - Latest release: 3 months ago - 6.11 thousand downloads total - 0 stars on GitHub - 1 maintainer
metaseqR2 1.20.0
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statisti...5 versions - Latest release: 3 months ago - 9.37 thousand downloads total - 1 maintainer
IsoformSwitchAnalyzeR 2.8.0
Identify, Annotate and Visualize Isoform Switches with Functional Consequences from both short- a...5 versions - Latest release: 3 months ago - 37.7 thousand downloads total - 1 maintainer
TIN 1.40.0
Transcriptome instability analysis5 versions - Latest release: 3 months ago - 16.8 thousand downloads total - 1 maintainer
MBttest 1.36.0
Multiple Beta t-Tests5 versions - Latest release: 3 months ago - 13.7 thousand downloads total - 1 maintainer
VarCon 1.16.0
VarCon: an R package for retrieving neighboring nucleotides of an SNV5 versions - Latest release: 3 months ago - 6.23 thousand downloads total - 1 maintainer
PAIRADISE 1.24.1
PAIRADISE: Paired analysis of differential isoform expression6 versions - Latest release: about 2 months ago - 11.7 thousand downloads total - 2 maintainers
Top 2.4% on bioconductor.org
6 versions - Latest release: 2 months ago - 10 dependent packages - 268 thousand downloads total - 1 maintainer
DEXSeq 1.54.1
Inference of differential exon usage in RNA-Seq6 versions - Latest release: 2 months ago - 10 dependent packages - 268 thousand downloads total - 1 maintainer
RgnTX 1.10.0
Colocalization analysis of transcriptome elements in the presence of isoform heterogeneity and am...5 versions - Latest release: 3 months ago - 4.68 thousand downloads total - 1 maintainer
IVAS 2.28.0
Identification of genetic Variants affecting Alternative Splicing5 versions - Latest release: 3 months ago - 1 dependent package - 18.6 thousand downloads total - 1 maintainer
SplicingFactory 1.16.0
Splicing Diversity Analysis for Transcriptome Data5 versions - Latest release: 3 months ago - 5.84 thousand downloads total - 4 stars on GitHub - 1 maintainer
ModCon 1.16.0
Modifying splice site usage by changing the mRNP code, while maintaining the genetic code5 versions - Latest release: 3 months ago - 5.68 thousand downloads total - 1 stars on GitHub - 1 maintainer
AMARETTO 1.24.0
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis an...5 versions - Latest release: 3 months ago - 14.2 thousand downloads total - 1 maintainer
pairedGSEA 1.8.0
Paired DGE and DGS analysis for gene set enrichment analysis5 versions - Latest release: 3 months ago - 3.85 thousand downloads total - 2 stars on GitHub - 1 maintainer
kissDE 1.28.0
Retrieves Condition-Specific Variants in RNA-Seq Data5 versions - Latest release: 3 months ago - 12.1 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 8.6% on bioconductor.org
5 versions - Latest release: 3 months ago - 33.4 thousand downloads total - 1 maintainer
SplicingGraphs 1.48.0
Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them5 versions - Latest release: 3 months ago - 33.4 thousand downloads total - 1 maintainer
Top 6.1% on bioconductor.org
6 versions - Latest release: about 2 months ago - 3 dependent packages - 52.1 thousand downloads total - 1 maintainer
SGSeq 1.42.1
Splice event prediction and quantification from RNA-seq data6 versions - Latest release: about 2 months ago - 3 dependent packages - 52.1 thousand downloads total - 1 maintainer
customProDB 1.48.0
Generate customized protein database from NGS data, with a focus on RNA-Seq data, for proteomics ...6 versions - Latest release: 3 months ago - 30.7 thousand downloads total - 1 maintainer
pfamAnalyzeR 1.8.0
Identification of domain isotypes in pfam data5 versions - Latest release: 3 months ago - 1 dependent package - 11.9 thousand downloads total - 1 stars on GitHub - 1 maintainer
factR 1.10.0
Functional Annotation of Custom Transcriptomes5 versions - Latest release: 3 months ago - 5.22 thousand downloads total - 1 stars on GitHub - 1 maintainer
BANDITS 1.24.0
BANDITS: Bayesian ANalysis of DIfferenTial Splicing6 versions - Latest release: 3 months ago - 1 dependent package - 13.8 thousand downloads total - 17 stars on GitHub - 1 maintainer
IntEREst 1.32.0
Intron-Exon Retention Estimator7 versions - Latest release: 3 months ago - 15.5 thousand downloads total - 1 maintainer
VaSP 1.20.0
Quantification and Visualization of Variations of Splicing in Population5 versions - Latest release: 3 months ago - 6.78 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 5.3% on bioconductor.org
5 versions - Latest release: 3 months ago - 1 dependent package - 52.3 thousand downloads total - 1 maintainer
puma 3.50.0
Propagating Uncertainty in Microarray Analysis(including Affymetrix tranditional 3' arrays and ex...5 versions - Latest release: 3 months ago - 1 dependent package - 52.3 thousand downloads total - 1 maintainer
FRASER 2.4.3
Find RAre Splicing Events in RNA-Seq Data8 versions - Latest release: 29 days ago - 13.3 thousand downloads total - 46 stars on GitHub - 1 maintainer
roastgsa 1.6.0
Rotation based gene set analysis4 versions - Latest release: 3 months ago - 3.81 thousand downloads total - 0 stars on GitHub - 1 maintainer
EventPointer 3.16.0
An effective identification of alternative splicing events using junction arrays and RNA-Seq data5 versions - Latest release: 3 months ago - 15.8 thousand downloads total - 4 stars on GitHub - 1 maintainer
SPLINTER 1.34.0
Splice Interpreter of Transcripts5 versions - Latest release: 2 months ago - 13.7 thousand downloads total - 0 stars on GitHub - 1 maintainer
GenomicPlot 1.6.0
Plot profiles of next generation sequencing data in genomic features14 versions - Latest release: 3 months ago - 4.84 thousand downloads total - 7 stars on GitHub - 1 maintainer
saseR 1.4.0
Scalable Aberrant Splicing and Expression Retrieval3 versions - Latest release: 3 months ago - 2.98 thousand downloads total - 1 stars on GitHub - 1 maintainer
dasper 1.9.0 removed
Detecting abberant splicing events from RNA-sequencing data1 version - Latest release: almost 2 years ago - 1 dependent package - 2.76 thousand downloads total - 14 stars on GitHub - 1 maintainer
InterMineR 1.26.0 removed
R Interface with InterMine-Powered Databases4 versions - Latest release: about 1 year ago - 12 thousand downloads total - 17 stars on GitHub - 1 maintainer
ASpediaFI 1.14.0 removed
ASpedia-FI: Functional Interaction Analysis of Alternative Splicing Events1 version - Latest release: almost 2 years ago - 3.82 thousand downloads total - 1 stars on GitHub - 1 maintainer
NxtIRFcore 1.6.0 removed
Core Engine for NxtIRF: a User-Friendly Intron Retention and Alternative Splicing Analysis using ...1 version - Latest release: almost 2 years ago - 1.4 thousand downloads total - 1 stars on GitHub - 1 maintainer
alpine 1.26.0 removed
alpine1 version - Latest release: almost 2 years ago - 12.2 thousand downloads total - 1 maintainer
NBSplice 1.18.0 removed
Negative Binomial Models to detect Differential Splicing1 version - Latest release: almost 2 years ago - 5.1 thousand downloads total - 1 maintainer
IsoBayes 1.2.7
IsoBayes: Single Isoform protein inference Method via Bayesian Analyses5 versions - Latest release: 9 months ago - 2.24 thousand downloads total - 7 stars on GitHub - 1 maintainer
Related Keywords
Software
55
RNASeq
43
DifferentialSplicing
35
GeneExpression
32
Sequencing
31
DifferentialExpression
27
Transcription
26
ImmunoOncology
25
Visualization
16
Transcriptomics
16
Coverage
13
MultipleComparison
13
FunctionalGenomics
12
Regression
10
Genetics
10
GeneSetEnrichment
9
DataImport
9
BatchEffect
9
SystemsBiology
8
Microarray
8
Normalization
8
BiomedicalInformatics
8
Bayesian
8
TimeCourse
7
StatisticalMethod
7
QualityControl
7
Preprocessing
7
Clustering
7
Annotation
6
GeneRegulation
6
Pathways
6
mRNAMicroarray
6
ExonArray
6
Proteomics
6
Epigenetics
5
SNP
5
ChIPSeq
5
FunctionalPrediction
5
CellBiology
4
splicing
4
ProprietaryPlatforms
4
OneChannel
4
TwoChannel
4
SingleCell
3
genomics
3
KEGG
3
rna-seq
3
r
3
TranscriptomeVariant
3
WorkflowStep
3
GenePrediction
3
MicroRNAArray
3
gene-expression
2
Survival
2
alternative-splicing
2
ExperimentalDesign
2
rare-disease
2
DataRepresentation
2
diagnostics
2
Reactome
2
Network
2
MassSpectrometry
2
rna-seq-analysis
2
bioconductor
2
statistics
2
transcriptomics
2
rna-seq-data
2
DifferentialMethylation
2
SAGE
2
Metabolomics
2
Cheminformatics
2
Alignment
2
GenomeAnnotation
2
GUI
2
custom-transcriptomes
1
functional-annotation
1
gtf
1
LongRead
1
GenomicVariation
1
alternative-promoters
1
3s-scores
1
PrincipalComponent
1
ballgown
1
sqtl
1
visualization
1
ChipOnChip
1
HTA2.0
1
aberrant-splicing
1
DNAMethylation
1
outlier-detection
1
ComparativeGenomics
1
GO
1
GenomeWideAssociation
1
biology
1
intermine
1
GraphAndNetwork
1
NetworkInference
1
data-analyses
1
differential-gene-expression
1
differential-splicing-analysis
1