bioconductor.org "DNASeq" keyword
View the packages on the bioconductor.org package registry that are tagged with the "DNASeq" keyword.
Top 2.2% on bioconductor.org
6 versions - Latest release: about 1 month ago - 13 dependent packages - 261 thousand downloads total - 1 maintainer
regioneR 1.40.1
Association analysis of genomic regions based on permutation tests6 versions - Latest release: about 1 month ago - 13 dependent packages - 261 thousand downloads total - 1 maintainer
Top 1.5% on bioconductor.org
5 versions - Latest release: 3 months ago - 9 dependent packages - 281 thousand downloads total - 469 stars on GitHub - 1 maintainer
maftools 2.24.0 💰
Summarize, Analyze and Visualize MAF Files5 versions - Latest release: 3 months ago - 9 dependent packages - 281 thousand downloads total - 469 stars on GitHub - 1 maintainer
mnem 1.24.0
Mixture Nested Effects Models5 versions - Latest release: 3 months ago - 4 dependent packages - 13.1 thousand downloads total - 4 stars on GitHub - 1 maintainer
seqArchR 1.12.0
Identify Different Architectures of Sequence Elements5 versions - Latest release: 3 months ago - 1 dependent package - 6.34 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 7.1% on bioconductor.org
5 versions - Latest release: 3 months ago - 27 thousand downloads total - 87 stars on GitHub - 1 maintainer
TitanCNA 1.45.0
Subclonal copy number and LOH prediction from whole genome sequencing of tumours5 versions - Latest release: 3 months ago - 27 thousand downloads total - 87 stars on GitHub - 1 maintainer
ATACseqQC 1.32.0
ATAC-seq Quality Control5 versions - Latest release: 2 months ago - 2 dependent packages - 56.8 thousand downloads total - 1 maintainer
TVTB 1.34.0
TVTB: The VCF Tool Box6 versions - Latest release: 2 months ago - 13.5 thousand downloads total - 2 stars on GitHub - 1 maintainer
Top 2.9% on bioconductor.org
6 versions - Latest release: 20 days ago - 8 dependent packages - 106 thousand downloads total - 318 stars on GitHub - 1 maintainer
karyoploteR 1.34.2
Plot customizable linear genomes displaying arbitrary data6 versions - Latest release: 20 days ago - 8 dependent packages - 106 thousand downloads total - 318 stars on GitHub - 1 maintainer
CopyNumberPlots 1.24.0
Create Copy-Number Plots using karyoploteR functionality6 versions - Latest release: about 2 months ago - 2 dependent packages - 13.9 thousand downloads total - 6 stars on GitHub - 1 maintainer
miaSim 1.14.0
Microbiome Data Simulation5 versions - Latest release: 3 months ago - 7.38 thousand downloads total - 22 stars on GitHub - 1 maintainer
CNVfilteR 1.22.0
Identifies false positives of CNV calling tools by using SNV calls6 versions - Latest release: about 2 months ago - 9.37 thousand downloads total - 5 stars on GitHub - 1 maintainer
SigsPack 1.22.0
Mutational Signature Estimation for Single Samples5 versions - Latest release: 3 months ago - 8.55 thousand downloads total - 2 stars on GitHub - 1 maintainer
ATACseqTFEA 1.10.0
Transcription Factor Enrichment Analysis for ATAC-seq5 versions - Latest release: 3 months ago - 5.51 thousand downloads total - 1 stars on GitHub - 1 maintainer
uSORT 1.34.0
uSORT: A self-refining ordering pipeline for gene selection5 versions - Latest release: 3 months ago - 14 thousand downloads total - 1 maintainer
Clomial 1.44.0
Infers clonal composition of a tumor5 versions - Latest release: 3 months ago - 20.4 thousand downloads total - 1 maintainer
regioneReloaded 1.10.0
RegioneReloaded: Multiple Association for Genomic Region Sets5 versions - Latest release: 3 months ago - 4.87 thousand downloads total - 5 stars on GitHub - 1 maintainer
SPsimSeq 1.18.0
Semi-parametric simulation tool for bulk and single-cell RNA sequencing data5 versions - Latest release: 3 months ago - 2 dependent packages - 9.89 thousand downloads total - 10 stars on GitHub - 1 maintainer
nempi 1.16.0
Inferring unobserved perturbations from gene expression data5 versions - Latest release: 3 months ago - 6.41 thousand downloads total - 2 stars on GitHub - 1 maintainer
YAPSA 1.34.0
Yet Another Package for Signature Analysis5 versions - Latest release: 3 months ago - 24.1 thousand downloads total - 1 maintainer
SARC 1.6.0
Statistical Analysis of Regions with CNVs4 versions - Latest release: 3 months ago - 3.91 thousand downloads total - 0 stars on GitHub - 1 maintainer
tweeDEseq 1.54.0
RNA-seq data analysis using the Poisson-Tweedie family of distributions5 versions - Latest release: 3 months ago - 37.6 thousand downloads total - 0 stars on GitHub - 1 maintainer
HGC 1.16.0
A fast hierarchical graph-based clustering method5 versions - Latest release: 3 months ago - 6.96 thousand downloads total - 1 maintainer
Top 5.4% on bioconductor.org
5 versions - Latest release: 3 months ago - 4 dependent packages - 60.4 thousand downloads total - 50 stars on GitHub - 1 maintainer
QDNAseq 1.44.0
Quantitative DNA Sequencing for Chromosomal Aberrations5 versions - Latest release: 3 months ago - 4 dependent packages - 60.4 thousand downloads total - 50 stars on GitHub - 1 maintainer
RcwlPipelines 1.24.0
Bioinformatics pipelines based on Rcwl6 versions - Latest release: 3 months ago - 1 dependent package - 11.7 thousand downloads total - 1 maintainer
Top 4.0% on bioconductor.org
5 versions - Latest release: 3 months ago - 4 dependent packages - 105 thousand downloads total - 28 stars on GitHub - 1 maintainer
ALDEx2 1.40.0
Analysis Of Differential Abundance Taking Sample and Scale Variation Into Account5 versions - Latest release: 3 months ago - 4 dependent packages - 105 thousand downloads total - 28 stars on GitHub - 1 maintainer
QSutils 1.26.0
Quasispecies Diversity5 versions - Latest release: 3 months ago - 24.9 thousand downloads total - 1 maintainer
NADfinder 1.32.0
Call wide peaks for sequencing data5 versions - Latest release: 3 months ago - 14.1 thousand downloads total - 2 maintainers
esATAC 1.30.0
An Easy-to-use Systematic pipeline for ATACseq data analysis5 versions - Latest release: 3 months ago - 24.6 thousand downloads total - 23 stars on GitHub - 1 maintainer
GeneBreak 1.38.0
Gene Break Detection5 versions - Latest release: 3 months ago - 16.4 thousand downloads total - 2 stars on GitHub - 1 maintainer
seq.hotSPOT 1.8.0
Targeted sequencing panel design based on mutation hotspots5 versions - Latest release: 3 months ago - 4.11 thousand downloads total - 0 stars on GitHub - 1 maintainer
spatialHeatmap 2.14.1
spatialHeatmap: Visualizing Spatial Assays in Anatomical Images and Large-Scale Data Extensions14 versions - Latest release: 28 days ago - 11.8 thousand downloads total - 4 stars on GitHub - 1 maintainer
dearseq 1.20.0
Differential Expression Analysis for RNA-seq data through a robust variance component test5 versions - Latest release: 3 months ago - 2 dependent packages - 16 thousand downloads total - 6 stars on GitHub - 1 maintainer
SCOPE 1.20.0
A normalization and copy number estimation method for single-cell DNA sequencing5 versions - Latest release: 3 months ago - 8.74 thousand downloads total - 1 maintainer
decompTumor2Sig 2.24.0
Decomposition of individual tumors into mutational signatures by signature refitting5 versions - Latest release: 3 months ago - 1 dependent package - 14.5 thousand downloads total - 1 maintainer
CNViz 1.16.0
Copy Number Visualization5 versions - Latest release: 3 months ago - 6.02 thousand downloads total - 1 maintainer
breakpointR 1.26.0
Find breakpoints in Strand-seq data5 versions - Latest release: 3 months ago - 12.9 thousand downloads total - 8 stars on GitHub - 1 maintainer
ACE 1.26.0
Absolute Copy Number Estimation from Low-coverage Whole Genome Sequencing5 versions - Latest release: 3 months ago - 14.8 thousand downloads total - 15 stars on GitHub - 1 maintainer
CNAnorm 1.54.0
A normalization method for Copy Number Aberration in cancer samples5 versions - Latest release: 3 months ago - 31.5 thousand downloads total - 1 maintainer
compSPOT 1.6.0
compSPOT: Tool for identifying and comparing significantly mutated genomic hotspots4 versions - Latest release: 3 months ago - 3.62 thousand downloads total - 0 stars on GitHub - 1 maintainer
omicplotR 1.28.0
Visual Exploration of Omic Datasets Using a Shiny App5 versions - Latest release: 3 months ago - 12.6 thousand downloads total - 1 maintainer
Top 5.7% on bioconductor.org
5 versions - Latest release: 3 months ago - 58 thousand downloads total - 194 stars on GitHub - 1 maintainer
GenVisR 1.39.0
Genomic Visualizations in R5 versions - Latest release: 3 months ago - 58 thousand downloads total - 194 stars on GitHub - 1 maintainer
coMET 1.40.0
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methyl...6 versions - Latest release: 3 months ago - 23.5 thousand downloads total - 1 maintainer
semisup 1.32.0
Semi-Supervised Mixture Model5 versions - Latest release: 2 months ago - 11.8 thousand downloads total - 1 stars on GitHub - 1 maintainer
MMAPPR2 1.18.0 removed
Mutation Mapping Analysis Pipeline for Pooled RNA-Seq3 versions - Latest release: about 1 year ago - 3.62 thousand downloads total - 1 maintainer
Related Keywords
Software
44
Sequencing
32
CopyNumberVariation
13
Genetics
13
Visualization
13
RNASeq
12
ImmunoOncology
10
Coverage
10
WholeGenome
8
SingleCell
8
DataImport
7
Clustering
7
GeneExpression
7
ATACSeq
7
GenomicVariation
6
MultipleComparison
5
Alignment
5
QualityControl
5
ChIPSeq
5
Classification
5
SomaticMutation
5
DifferentialExpression
5
MethylSeq
4
Network
4
DataRepresentation
4
StatisticalMethod
4
SystemsBiology
4
Transcriptomics
4
GeneRegulation
4
CellBiology
3
Bayesian
3
GUI
3
GeneticVariability
3
Microarray
3
ExomeSeq
3
bioconductor
3
Preprocessing
3
r
3
VariantAnnotation
3
PooledScreens
3
Microbiome
3
bioinformatics
3
BiomedicalInformatics
3
SNP
3
copy-number-variation
2
Technology
2
SequenceMatching
2
OneChannel
2
genomics-visualization
2
rstats
2
Metagenomics
2
DifferentialMethylation
2
BiologicalQuestion
2
GraphAndNetwork
2
FeatureExtraction
2
Pathways
2
FunctionalGenomics
2
Survival
2
NetworkInference
2
Normalization
2
r-package
2
genomics
2
CRISPR
2
Scale simulation
1
Posterior p-value
1
GenomeWideAssociation
1
MethylationArray
1
MotifAnnotation
1
WorkflowStep
1
RiboSeq
1
GenomeAnnotation
1
VariantDetection
1
DNAMethylation
1
PeakDetection
1
DNaseSeq
1
Infrastructure
1
Transcription
1
TimeCourse
1
Regression
1
KEGG
1
GeneSetEnrichment
1
TissueMicroarray
1
atac-seq
1
Spatial
1
pipeline
1
aCGH
1
GeneTarget
1
CellBasedAssays
1
DriverMutation
1
cancer-genome-atlas
1
cancer-genomics
1
maf-files
1
tcga
1
DimensionReduction
1
MathematicalBiology
1
MotifDiscovery
1
clustering
1
nmf
1
nonnegative-matrix-factorization
1
promoter-sequence-architectures
1