bioconductor.org "HiC" keyword
HiCaptuRe 1.2.0
HiCaptuRe: Manipulating and integrating Capture Hi-C data2 versions - Latest release: 6 months ago - 9.29 thousand downloads total - 3 stars on GitHub - 1 maintainer
rGenomeTracks 1.18.0
Integerated visualization of epigenomic data7 versions - Latest release: 5 months ago - 16.9 thousand downloads total - 1 maintainer
HiCExperiment 1.12.0
Bioconductor class for interacting with Hi-C files in R7 versions - Latest release: 5 months ago - 2 dependent packages - 22.6 thousand downloads total - 13 stars on GitHub - 1 maintainer
HiSpaR 1.0.0
Hierarchical Inference of Spatial Positions from Hi-C Data1 version - Latest release: 6 months ago - 2.49 thousand downloads total - 0 stars on GitHub - 1 maintainer
plotgardener 1.18.0
Coordinate-Based Genomic Visualization Package for R12 versions - Latest release: 6 months ago - 4 dependent packages - 35.9 thousand downloads total - 371 stars on GitHub - 2 maintainers
extraChIPs 1.16.3
Additional functions for working with ChIP-Seq data15 versions - Latest release: 11 days ago - 2 dependent packages - 22.3 thousand downloads total - 7 stars on GitHub - 1 maintainer
R3CPET 1.44.0
3CPET: Finding Co-factor Complexes in Chia-PET experiment using a Hierarchical Dirichlet Process8 versions - Latest release: 5 months ago - 32.9 thousand downloads total - 4 stars on GitHub - 1 maintainer
OHCA 1.8.0
Orchestrating Hi-C analysis with Bioconductor1 version - Latest release: 11 days ago - 0 downloads total - 11 stars on GitHub - 1 maintainer
HiCool 1.12.0
HiCool8 versions - Latest release: 5 months ago - 11.8 thousand downloads total - 2 stars on GitHub - 1 maintainer
HiContacts 1.14.0
Analysing cool files in R with HiContacts7 versions - Latest release: 5 months ago - 2 dependent packages - 24.1 thousand downloads total - 16 stars on GitHub - 1 maintainer
GOTHiC 1.48.0
Binomial test for Hi-C data analysis7 versions - Latest release: 6 months ago - 37.3 thousand downloads total - 1 maintainer
SpectralTAD 1.28.2
SpectralTAD: Hierarchical TAD detection using spectral clustering8 versions - Latest release: about 2 months ago - 1 dependent package - 20.6 thousand downloads total - 13 stars on GitHub - 1 maintainer
TADCompare 1.22.2
TADCompare: Identification and characterization of differential TADs9 versions - Latest release: about 2 months ago - 17.4 thousand downloads total - 27 stars on GitHub - 1 maintainer
HiCDCPlus 1.20.0
Hi-C Direct Caller Plus7 versions - Latest release: 5 months ago - 19.8 thousand downloads total - 1 maintainer
GenomicInteractionNodes 1.16.0
A R/Bioconductor package to detect the interaction nodes from HiC/HiChIP/HiCAR data7 versions - Latest release: 5 months ago - 12 thousand downloads total - 0 stars on GitHub - 1 maintainer
HiCParser 1.4.0
Parser for HiC data in R3 versions - Latest release: 4 months ago - 6.29 thousand downloads total - 1 stars on GitHub - 1 maintainer
mariner 1.12.0
Mariner: Explore the Hi-Cs9 versions - Latest release: 6 months ago - 11.8 thousand downloads total - 1 maintainer
idr2d 1.26.0
Irreproducible Discovery Rate for Genomic Interactions Data8 versions - Latest release: 6 months ago - 18.3 thousand downloads total - 1 maintainer
sevenC 1.32.0
Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs7 versions - Latest release: 6 months ago - 22 thousand downloads total - 13 stars on GitHub - 1 maintainer
HiCBricks 1.30.1
Framework for Storing and Accessing Hi-C Data Through HDF Files8 versions - Latest release: about 2 months ago - 1 dependent package - 23.8 thousand downloads total - 1 maintainer
preciseTAD 1.22.0
preciseTAD: A machine learning framework for precise TAD boundary prediction7 versions - Latest release: 5 months ago - 18.3 thousand downloads total - 8 stars on GitHub - 1 maintainer
spatzie 1.18.0
Identification of enriched motif pairs from chromatin interaction data7 versions - Latest release: 5 months ago - 9.17 thousand downloads total - 1 maintainer
multiHiCcompare 1.30.0
Normalize and detect differences between Hi-C datasets when replicates of each experimental condi...7 versions - Latest release: 5 months ago - 2 dependent packages - 26.3 thousand downloads total - 10 stars on GitHub - 1 maintainer
bnbc 1.34.0
Bandwise normalization and batch correction of Hi-C data8 versions - Latest release: 5 months ago - 25.4 thousand downloads total - 2 stars on GitHub - 1 maintainer
HicAggR 1.8.0
Set of 3D genomic interaction analysis tools4 versions - Latest release: 2 months ago - 9.86 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 6.7% on bioconductor.org
7 versions - Latest release: 6 months ago - 7 dependent packages - 81.1 thousand downloads total - 7 stars on GitHub - 1 maintainer
GenomicInteractions 1.46.0
Utilities for handling genomic interaction data7 versions - Latest release: 6 months ago - 7 dependent packages - 81.1 thousand downloads total - 7 stars on GitHub - 1 maintainer
InTAD 1.32.0
Search for correlation between epigenetic signals and gene expression in TADs7 versions - Latest release: 6 months ago - 18.9 thousand downloads total - 1 maintainer
diffHic 1.44.0
Differential Analysis of Hi-C Data7 versions - Latest release: 6 months ago - 50.7 thousand downloads total - 3 maintainers
Top 3.7% on bioconductor.org
8 versions - Latest release: 5 months ago - 23 dependent packages - 231 thousand downloads total - 1 maintainer
InteractionSet 1.40.0
Base Classes for Storing Genomic Interaction Data8 versions - Latest release: 5 months ago - 23 dependent packages - 231 thousand downloads total - 1 maintainer
Top 7.0% on bioconductor.org
7 versions - Latest release: 5 months ago - 1 dependent package - 70.3 thousand downloads total - 1 maintainer
HiTC 1.56.0
High Throughput Chromosome Conformation Capture analysis7 versions - Latest release: 5 months ago - 1 dependent package - 70.3 thousand downloads total - 1 maintainer
HiCcompare 1.34.0
HiCcompare: Joint normalization and comparative analysis of multiple Hi-C datasets7 versions - Latest release: 5 months ago - 3 dependent packages - 52.1 thousand downloads total - 22 stars on GitHub - 1 maintainer
HiCDOC 1.14.0
A/B compartment detection and differential analysis11 versions - Latest release: 5 months ago - 20.5 thousand downloads total - 5 stars on GitHub - 1 maintainer
Chicago 1.40.0
CHiCAGO: Capture Hi-C Analysis of Genomic Organization7 versions - Latest release: 5 months ago - 39.1 thousand downloads total - 1 maintainer
scHiCcompare 1.4.0
Differential Analysis of Single-cell Hi-C Data3 versions - Latest release: 6 months ago - 9.69 thousand downloads total - 0 stars on GitHub - 1 maintainer
hicVennDiagram 1.10.0
Venn Diagram for genomic interaction data9 versions - Latest release: 5 months ago - 14.3 thousand downloads total - 0 stars on GitHub - 1 maintainer
linkSet 1.2.0
Base Classes for Storing Genomic Link Data2 versions - Latest release: 5 months ago - 3.13 thousand downloads total - 0 stars on GitHub - 1 maintainer
Pi 2.18.0 removed
Leveraging Genetic Evidence to Prioritise Drug Targets at the Gene and Pathway Level4 versions - Latest release: almost 2 years ago - 19 thousand downloads total - 1 maintainer
Related Keywords
Software
37
Sequencing
17
DNA3DStructure
11
DataImport
8
Epigenetics
8
Normalization
8
FunctionalGenomics
7
Visualization
5
Clustering
5
Coverage
4
ChIPSeq
4
DataRepresentation
4
Classification
4
FeatureExtraction
3
Preprocessing
3
GeneExpression
3
Infrastructure
3
PeakDetection
2
GeneRegulation
2
ImmunoOncology
2
r-package
2
chromatin-interaction
2
RNASeq
2
hi-c
2
Network
2
Bayesian
2
GraphAndNetwork
2
SingleCell
2
HighThroughputSequencing
1
Regression
1
3d-genome
1
chip-seq
1
MultipleComparison
1
Spatial
1
StructuralPrediction
1
Alignment
1
transcription-facto
1
prediction
1
dirichlet-process-mixtures
1
sequence-motif
1
chia-pet
1
Technology
1
transcription-factors
1
NetworkInference
1
GenePrediction
1
difference-detection
1
hic
1
normalization
1
visualization
1
GenomeAnnotation
1
GenomeAssembly
1
chromatin
1
schi-c
1
single-cell
1
GeneTarget
1
Genetics
1
GenomeWideAssociation
1
LinkageDisequilibrium
1
Pathways
1
ATACSeq
1
DNaseSeq
1
r
1
Transcription
1
Annotation
1
ChIPchip
1