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bioconductor-desubs
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public |
DEsubs: an R package for flexible identification of differentially expressed subpathways using RNA-seq expression experiments
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2024-12-25 |
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bioconductor-multirnaflow
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public |
An R package for integrated analysis of temporal RNA-seq data with multiple biological conditions
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2024-12-25 |
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bioconductor-dropletutils
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public |
Utilities for Handling Single-Cell Droplet Data
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2024-12-25 |
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bioconductor-pathostat
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public |
PathoStat Statistical Microbiome Analysis Package
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2024-12-25 |
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bioconductor-delocal
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public |
Identifies differentially expressed genes with respect to other local genes
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2024-12-25 |
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bioconductor-dewseq
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public |
Differential Expressed Windows Based on Negative Binomial Distribution
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2024-12-25 |
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bioconductor-netactivity
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public |
Compute gene set scores from a deep learning framework
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2024-12-25 |
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r-bulkanalyser
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public |
Given an expression matrix from a bulk sequencing experiment, pre-processes it and creates a shiny app for interactive data analysis and visualisation. The app contains quality checks, differential expression analysis, volcano and cross plots, enrichment analysis and gene regulatory network inference, and can be customised to contain more panels by the user.
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2024-12-25 |
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bioconductor-tcc
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public |
TCC: Differential expression analysis for tag count data with robust normalization strategies
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2024-12-25 |
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bioconductor-bloodcancermultiomics2017
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public |
"Drug-perturbation-based stratification of blood cancer" by Dietrich S, Oles M, Lu J et al. - experimental data and complete analysis
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2024-12-25 |
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bioconductor-hybridexpress
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public |
Comparative analysis of RNA-seq data for hybrids and their progenitors
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2024-12-25 |
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r-empiricalfdr.deseq2
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public |
Auxiliary functions for the DESeq2 package to simulate read counts according to the null hypothesis (i.e., with empirical sample size factors, per-gene total counts and dispersions, but without effects of predictor variables) and to compute the empirical false discovery rate.
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2024-12-25 |
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bioconductor-systempipetools
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public |
Tools for data visualization
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2024-12-25 |
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r-r4cker
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public |
Analysis of 4C-seq (circularized chromosome conformation capture) data
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2024-12-25 |
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bioconductor-gg4way
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public |
4way Plots of Differential Expression
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2024-12-25 |
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bioconductor-htsfilter
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public |
Filter replicated high-throughput transcriptome sequencing data
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2024-12-25 |
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bioconductor-deformats
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public |
Differential gene expression data formats converter
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2024-12-25 |
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bioconductor-mlseq
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public |
Machine Learning Interface for RNA-Seq Data
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2024-12-25 |
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r-htssip
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public |
Functions for analyzing high throughput sequencing stable isotope probing (HTS-SIP) data. Analyses include high resolution stable isotope probing (HR-SIP), multi-window high resolution stable isotope probing (MW-HR-SIP), and quantitative stable isotope probing (q-SIP).
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2024-12-25 |
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bioconductor-erssa
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public |
Empirical RNA-seq Sample Size Analysis
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2024-12-25 |
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bioconductor-degreport
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public |
Report of DEG analysis
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2024-12-25 |
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bioconductor-structtoolbox
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public |
Data processing & analysis tools for Metabolomics and other omics
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2024-12-25 |
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bioconductor-metmashr
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public |
Metabolite Mashing with R
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2024-12-25 |
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bioconductor-censcyt
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public |
Differential abundance analysis with a right censored covariate in high-dimensional cytometry
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2024-12-25 |
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bioconductor-treekor
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public |
Cytometry Cluster Hierarchy and Cellular-to-phenotype Associations
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2024-12-25 |
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bioconductor-micsqtl
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public |
MICSQTL (Multi-omic deconvolution, Integration and Cell-type-specific Quantitative Trait Loci)
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2024-12-25 |
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bioconductor-gloscope
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public |
Population-level Representation on scRNA-Seq data
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2024-12-25 |
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bioconductor-aggregatebiovar
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public |
Differential Gene Expression Analysis for Multi-subject scRNA-seq
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2024-12-25 |
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bioconductor-metaneighbor
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public |
Single cell replicability analysis
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2024-12-25 |
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bioconductor-chetah
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public |
Fast and accurate scRNA-seq cell type identification
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2024-12-25 |
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bioconductor-nebulosa
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public |
Single-Cell Data Visualisation Using Kernel Gene-Weighted Density Estimation
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2024-12-25 |
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bioconductor-schot
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public |
single-cell higher order testing
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2024-12-25 |
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bioconductor-tidysinglecellexperiment
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public |
Brings SingleCellExperiment to the Tidyverse
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2024-12-25 |
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bioconductor-zellkonverter
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public |
Conversion Between scRNA-seq Objects
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2024-12-25 |
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bioconductor-spotlight
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public |
`SPOTlight`: Spatial Transcriptomics Deconvolution
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2024-12-24 |
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bioconductor-fishpond
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public |
Fishpond: downstream methods and tools for expression data
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2024-12-24 |
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bioconductor-scdesign3
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public |
A unified framework of realistic in silico data generation and statistical model inference for single-cell and spatial omics
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2024-12-24 |
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bioconductor-trajectoryutils
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public |
Single-Cell Trajectory Analysis Utilities
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2024-12-24 |
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bioconductor-cogaps
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public |
Coordinated Gene Activity in Pattern Sets
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2024-12-24 |
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bioconductor-vdjdive
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public |
Analysis Tools for 10X V(D)J Data
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2024-12-24 |
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bioconductor-screclassify
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public |
scReClassify: post hoc cell type classification of single-cell RNA-seq data
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2024-12-24 |
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bioconductor-treesummarizedexperiment
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public |
TreeSummarizedExperiment: a S4 Class for Data with Tree Structures
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2024-12-24 |
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bioconductor-hippo
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public |
Heterogeneity-Induced Pre-Processing tOol
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2024-12-24 |
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bioconductor-mast
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public |
Model-based Analysis of Single Cell Transcriptomics
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2024-12-24 |
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bioconductor-rcsl
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public |
Rank Constrained Similarity Learning for single cell RNA sequencing data
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2024-12-24 |
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bioconductor-sc3
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public |
Single-Cell Consensus Clustering
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2024-12-24 |
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bioconductor-clusterfoldsimilarity
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public |
Calculate similarity of clusters from different single cell samples using foldchanges
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2024-12-24 |
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bioconductor-schex
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public |
Hexbin plots for single cell omics data
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2024-12-24 |
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bioconductor-cdi
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public |
Clustering Deviation Index (CDI)
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2024-12-24 |
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bioconductor-rgsepd
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public |
Gene Set Enrichment / Projection Displays
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2024-12-24 |
