|
bioconductor-rhtslib
|
public |
HTSlib high-throughput sequencing library as an R package
|
2024-05-06 |
|
bioconductor-biobase
|
public |
Biobase: Base functions for Bioconductor
|
2024-05-06 |
|
bioconductor-delayedarray
|
public |
A unified framework for working transparently with on-disk and in-memory array-like datasets
|
2024-05-06 |
|
bioconductor-biostrings
|
public |
Efficient manipulation of biological strings
|
2024-05-02 |
|
bioconductor-rsubread
|
public |
Mapping, quantification and variant analysis of sequencing data
|
2024-05-02 |
|
bioconductor-iranges
|
public |
Foundation of integer range manipulation in Bioconductor
|
2024-05-02 |
|
bioconductor-xvector
|
public |
Foundation of external vector representation and manipulation in Bioconductor
|
2024-05-02 |
|
bioconductor-biocparallel
|
public |
Bioconductor facilities for parallel evaluation
|
2024-05-02 |
|
bioconductor-limma
|
public |
Linear Models for Microarray Data
|
2024-05-01 |
|
bioconductor-zlibbioc
|
public |
An R packaged zlib-1.2.5
|
2024-05-01 |
|
bioconductor-dnacopy
|
public |
DNA Copy Number Data Analysis
|
2024-05-01 |
|
bioconductor-impute
|
public |
impute: Imputation for microarray data
|
2024-05-01 |
|
bioconductor-s4vectors
|
public |
Foundation of vector-like and list-like containers in Bioconductor
|
2024-05-01 |
|
r-classdiscovery
|
public |
Defines the classes used for "class discovery" problems in the OOMPA project (<http://oompa.r-forge.r-project.org/>). Class discovery primarily consists of unsupervised clustering methods with attempts to assess their statistical significance.
|
2024-04-29 |
|
bioconductor-tximeta
|
public |
Transcript Quantification Import with Automatic Metadata
|
2024-04-17 |
|
bioconductor-promise
|
public |
PRojection Onto the Most Interesting Statistical Evidence
|
2024-04-13 |
|
bioconductor-otubase
|
public |
Provides structure and functions for the analysis of OTU data
|
2024-04-12 |
|
bioconductor-cocoa
|
public |
Coordinate Covariation Analysis
|
2024-04-12 |
|
bioconductor-dexseq
|
public |
Inference of differential exon usage in RNA-Seq
|
2024-04-02 |
|
r-aroma.core
|
public |
Core methods and classes used by higher-level 'aroma.*' packages part of the Aroma Project, e.g. 'aroma.affymetrix' and 'aroma.cn'.
|
2024-02-19 |
|
r-aroma.affymetrix
|
public |
A cross-platform R framework that facilitates processing of any number of Affymetrix microarray samples regardless of computer system. The only parameter that limits the number of chips that can be processed is the amount of available disk space. The Aroma Framework has successfully been used in studies to process tens of thousands of arrays. This package has actively been used since 2006.
|
2024-02-19 |
|
r-pscbs
|
public |
Segmentation of allele-specific DNA copy number data and detection of regions with abnormal copy number within each parental chromosome. Both tumor-normal paired and tumor-only analyses are supported.
|
2024-02-18 |
|
purge_haplotigs
|
public |
Pipeline to help with curating heterozygous diploid genome assemblies.
|
2024-02-09 |
|
r-jackstraw
|
public |
Test for association between the observed data and their systematic patterns of variations. Systematic patterns may be captured by latent variables using principal component analysis (PCA), factor analysis (FA), and related methods. The jackstraw enables statistical testing for association between observed variables and latent variables, as captured by PCs or other estimates. Similarly, unsupervised clustering, such as K-means clustering, partition around medoids (PAM), and others, finds subpopulations among the observed variables. The jackstraw estimates statistical significance of cluster membership, including unsupervised evaluation of cell identities in single cell RNA-seq. P-values and posterior probabilities allows one to rigorously evaluate the strength of cluster membership assignments.
|
2024-02-09 |
|
bioconductor-rjmcmcnucleosomes
|
public |
Bayesian hierarchical model for genome-wide nucleosome positioning with high-throughput short-read data (MNase-Seq)
|
2023-12-26 |
|
bioconductor-ccfindr
|
public |
Cancer Clone Finder
|
2023-12-26 |
|
bioconductor-singlecelltk
|
public |
Comprehensive and Interactive Analysis of Single Cell RNA-Seq Data
|
2023-12-26 |
|
bioconductor-cghmcr
|
public |
Find chromosome regions showing common gains/losses
|
2023-12-26 |
|
bioconductor-ping
|
public |
Probabilistic inference for Nucleosome Positioning with MNase-based or Sonicated Short-read Data
|
2023-12-26 |
|
bioconductor-matrixrider
|
public |
Obtain total affinity and occupancies for binding site matrices on a given sequence
|
2023-12-23 |
|
bioconductor-podkat
|
public |
Position-Dependent Kernel Association Test
|
2023-12-23 |
|
bioconductor-qsea
|
public |
IP-seq data analysis and vizualization
|
2023-12-23 |
|
bioconductor-rgadem
|
public |
de novo motif discovery
|
2023-12-23 |
|
bioconductor-eventpointer
|
public |
An effective identification of alternative splicing events using junction arrays and RNA-Seq data
|
2023-12-23 |
|
bioconductor-bicare
|
public |
Biclustering Analysis and Results Exploration
|
2023-12-23 |
|
bioconductor-dada2
|
public |
Accurate, high-resolution sample inference from amplicon sequencing data
|
2023-12-23 |
|
bioconductor-normr
|
public |
Normalization and difference calling in ChIP-seq data
|
2023-12-23 |
|
bioconductor-rrbsdata
|
public |
An RRBS data set with 12 samples and 10,000 simulated DMRs
|
2023-12-22 |
|
bioconductor-roar
|
public |
Identify differential APA usage from RNA-seq alignments
|
2023-12-22 |
|
bioconductor-r3cseq
|
public |
Analysis of Chromosome Conformation Capture and Next-generation Sequencing (3C-seq)
|
2023-12-22 |
|
bioconductor-pumadata
|
public |
Various data sets for use with the puma package
|
2023-12-22 |
|
bioconductor-prostar
|
public |
Provides a GUI for DAPAR
|
2023-12-22 |
|
bioconductor-gcapc
|
public |
GC Aware Peak Caller
|
2023-12-22 |
|
bioconductor-nucler
|
public |
Nucleosome positioning package for R
|
2023-12-22 |
|
bioconductor-neve2006
|
public |
expression and CGH data on breast cancer cell lines
|
2023-12-22 |
|
bioconductor-assign
|
public |
Adaptive Signature Selection and InteGratioN (ASSIGN)
|
2023-12-22 |
|
bioconductor-chipenrich
|
public |
Gene Set Enrichment For ChIP-seq Peak Data
|
2023-12-22 |
|
bioconductor-hireadsprocessor
|
public |
Functions to process LM-PCR reads from 454/Illumina data
|
2023-12-22 |
|
bioconductor-ioniser
|
public |
Quality Assessment Tools for Oxford Nanopore MinION data
|
2023-12-22 |
|
bioconductor-chipsim
|
public |
Simulation of ChIP-seq experiments
|
2023-12-22 |
