bioconductor.org "HiC" keyword
View the packages on the bioconductor.org package registry that are tagged with the "HiC" keyword.
HiCParser 1.0.0
Parser for HiC data in R1 version - Latest release: 3 months ago - 1.16 thousand downloads total - 0 stars on GitHub - 1 maintainer
extraChIPs 1.12.0
Additional functions for working with ChIP-Seq data9 versions - Latest release: 2 months ago - 2 dependent packages - 6.86 thousand downloads total - 7 stars on GitHub - 1 maintainer
HiCDOC 1.10.1
A/B compartment detection and differential analysis7 versions - Latest release: 2 months ago - 6.8 thousand downloads total - 4 stars on GitHub - 1 maintainer
sevenC 1.28.0
Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs5 versions - Latest release: 3 months ago - 12.1 thousand downloads total - 12 stars on GitHub - 1 maintainer
HiCool 1.8.0
HiCool5 versions - Latest release: 3 months ago - 5.21 thousand downloads total - 2 stars on GitHub - 1 maintainer
SpectralTAD 1.24.0
SpectralTAD: Hierarchical TAD detection using spectral clustering5 versions - Latest release: 3 months ago - 1 dependent package - 11.9 thousand downloads total - 10 stars on GitHub - 1 maintainer
Top 6.7% on bioconductor.org
5 versions - Latest release: 3 months ago - 7 dependent packages - 55 thousand downloads total - 7 stars on GitHub - 1 maintainer
GenomicInteractions 1.42.0
Utilities for handling genomic interaction data5 versions - Latest release: 3 months ago - 7 dependent packages - 55 thousand downloads total - 7 stars on GitHub - 1 maintainer
HiCExperiment 1.8.0
Bioconductor class for interacting with Hi-C files in R5 versions - Latest release: 3 months ago - 2 dependent packages - 8.15 thousand downloads total - 4 stars on GitHub - 1 maintainer
multiHiCcompare 1.26.0
Normalize and detect differences between Hi-C datasets when replicates of each experimental condi...5 versions - Latest release: 3 months ago - 2 dependent packages - 15 thousand downloads total - 9 stars on GitHub - 1 maintainer
bnbc 1.30.0
Bandwise normalization and batch correction of Hi-C data6 versions - Latest release: 3 months ago - 15.3 thousand downloads total - 1 stars on GitHub - 1 maintainer
Chicago 1.36.0
CHiCAGO: Capture Hi-C Analysis of Genomic Organization5 versions - Latest release: 3 months ago - 23.3 thousand downloads total - 1 maintainer
InTAD 1.28.0
Search for correlation between epigenetic signals and gene expression in TADs5 versions - Latest release: 3 months ago - 12.2 thousand downloads total - 1 maintainer
idr2d 1.22.0
Irreproducible Discovery Rate for Genomic Interactions Data5 versions - Latest release: 3 months ago - 9.21 thousand downloads total - 1 maintainer
preciseTAD 1.18.0
preciseTAD: A machine learning framework for precise TAD boundary prediction5 versions - Latest release: 2 months ago - 7.45 thousand downloads total - 8 stars on GitHub - 1 maintainer
HiContacts 1.10.0
Analysing cool files in R with HiContacts5 versions - Latest release: 3 months ago - 2 dependent packages - 7.7 thousand downloads total - 13 stars on GitHub - 1 maintainer
TADCompare 1.18.0
TADCompare: Identification and characterization of differential TADs6 versions - Latest release: 3 months ago - 9.64 thousand downloads total - 23 stars on GitHub - 1 maintainer
diffHic 1.40.0
Differential Analysis of Hi-C Data5 versions - Latest release: 3 months ago - 28.6 thousand downloads total - 3 maintainers
HiCBricks 1.26.0
Framework for Storing and Accessing Hi-C Data Through HDF Files5 versions - Latest release: 3 months ago - 1 dependent package - 13.1 thousand downloads total - 1 maintainer
hicVennDiagram 1.6.0
Venn Diagram for genomic interaction data6 versions - Latest release: 3 months ago - 4.09 thousand downloads total - 0 stars on GitHub - 1 maintainer
spatzie 1.14.0
Identification of enriched motif pairs from chromatin interaction data5 versions - Latest release: 3 months ago - 5.65 thousand downloads total - 1 maintainer
GOTHiC 1.44.0
Binomial test for Hi-C data analysis5 versions - Latest release: 3 months ago - 26.9 thousand downloads total - 1 maintainer
R3CPET 1.40.0
3CPET: Finding Co-factor Complexes in Chia-PET experiment using a Hierarchical Dirichlet Process6 versions - Latest release: 3 months ago - 16.9 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 3.7% on bioconductor.org
6 versions - Latest release: about 2 months ago - 23 dependent packages - 146 thousand downloads total - 1 maintainer
InteractionSet 1.36.1
Base Classes for Storing Genomic Interaction Data6 versions - Latest release: about 2 months ago - 23 dependent packages - 146 thousand downloads total - 1 maintainer
Top 7.0% on bioconductor.org
5 versions - Latest release: 3 months ago - 1 dependent package - 48.4 thousand downloads total - 1 maintainer
HiTC 1.52.0
High Throughput Chromosome Conformation Capture analysis5 versions - Latest release: 3 months ago - 1 dependent package - 48.4 thousand downloads total - 1 maintainer
rGenomeTracks 1.14.0
Integerated visualization of epigenomic data5 versions - Latest release: 3 months ago - 5.49 thousand downloads total - 1 maintainer
GenomicInteractionNodes 1.12.0
A R/Bioconductor package to detect the interaction nodes from HiC/HiChIP/HiCAR data5 versions - Latest release: 3 months ago - 5.23 thousand downloads total - 0 stars on GitHub - 1 maintainer
HiCDCPlus 1.16.0
Hi-C Direct Caller Plus5 versions - Latest release: 3 months ago - 8.76 thousand downloads total - 1 maintainer
mariner 1.8.1
Mariner: Explore the Hi-Cs6 versions - Latest release: 2 months ago - 4.49 thousand downloads total - 1 maintainer
plotgardener 1.14.0
Coordinate-Based Genomic Visualization Package for R10 versions - Latest release: 3 months ago - 4 dependent packages - 16.2 thousand downloads total - 320 stars on GitHub - 2 maintainers
scHiCcompare 1.0.0
Differential Analysis of Single-cell Hi-C Data1 version - Latest release: 3 months ago - 1.02 thousand downloads total - 0 stars on GitHub - 1 maintainer
HiCcompare 1.30.0
HiCcompare: Joint normalization and comparative analysis of multiple Hi-C datasets5 versions - Latest release: 3 months ago - 3 dependent packages - 26.9 thousand downloads total - 15 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: 8 months ago - 19 thousand downloads total - 1 maintainer
HicAggR 1.2.0
Set of 3D genomic interaction analysis tools3 versions - Latest release: 8 months ago - 1.59 thousand downloads total - 1 stars on GitHub - 1 maintainer
Related Keywords
Software
33
Sequencing
15
DNA3DStructure
10
Normalization
8
DataImport
7
Epigenetics
6
FunctionalGenomics
6
Visualization
5
Clustering
5
ChIPSeq
4
Classification
4
GeneExpression
3
Preprocessing
3
Infrastructure
3
DataRepresentation
3
FeatureExtraction
3
Coverage
3
Network
2
GraphAndNetwork
2
PeakDetection
2
GeneRegulation
2
RNASeq
2
ImmunoOncology
2
chromatin-interaction
2
hi-c
2
r-package
2
Annotation
1
GenomeAnnotation
1
GenomeAssembly
1
SingleCell
1
chromatin
1
schi-c
1
single-cell
1
difference-detection
1
GenomeWideAssociation
1
hic
1
normalization
1
visualization
1
Genetics
1
GeneTarget
1
LinkageDisequilibrium
1
r
1
DNaseSeq
1
ATACSeq
1
Pathways
1
ChIPchip
1
Regression
1
3d-genome
1
chip-seq
1
prediction
1
sequence-motif
1
transcription-factors
1
Alignment
1
MultipleComparison
1
Technology
1
Transcription
1
Bayesian
1
GenePrediction
1
NetworkInference
1
chia-pet
1
dirichlet-process-mixtures
1
transcription-facto
1
HighThroughputSequencing
1