Affymetrix SNP Probe-Summarization using Non-Negative Matrix Factoriza...
Automated Deconvolution Augmentation of Profiles for Tissue Specific C...
Immunoglobulin Clonal Lineage and Diversity Analysis
Estimating Absolute Protein Quantities from Label-Free LC-MS/MS Proteo...
Converts Human gene symbols to entrez IDs
Analysis of Codon Data under Stationarity using a Bayesian Framework
Extract Subsequences from GenBank Annotations
Decomposition of Bulk Expression with Single-Cell Sequencing
Copy-Number Analysis of Large Microarray Data Sets
Bayesian Estimation and Optimisation of Expected False Discovery Rate
Gene Orthologs for Model Organisms in a Tidy Data Format
Species Identification using DNA Barcodes
Classification of RNA Sequences using Complex Network Theory
Genomic Data Retrieval
A Dirichlet Process Mixture Model for Clustering Longitudinal Gene Exp...
FDR Based Multiple Testing Procedures with Adaptation for Discrete Tes...
A GUI to Correct Measurement Bias in DNA Methylation Analyses
Biological Structure Analysis
Filter and Plot RNA Biotypes
A Toolbox for Manipulating Biological Sequences
Computation of BRINDA Adjusted Micronutrient Biomarkers for Inflammati...
Centrality-Based Pathway Enrichment
CRISPR Pooled Screen Analysis using Beta-Binomial Test
Identification and Analysis of ceRNA Regulation
Exploratory Chemometrics for Spectroscopy
Interactive Genomic Visualization of Biological Data
Unbiased Single-Cell Transcriptomic Data Cell Type Identification
Differential Gene Expression (DGE) Analysis Utility Toolkit
Conformational Manipulations of Protein Atomic Structures
Clustering on Network of Samples
Combine Partial Covariance / Relationship Matrices
Calibration Plot for Proteomics
Codon Usage Bias Fits
Change Point Detection in Genomic Sequences
Desirability Functions for Ranking, Selecting, and Integrating Data
Depth Tools Package
Differential Gene Expression (DGE) Analysis Results Data Object
Analyzing and Visualizing Differential Correlation Networks in Biologi...
Differential Pattern Analysis via Linear Modeling
Direction Analysis for Pathways and Kinases
A User-Friendly Pipeline for Biomarker Discovery in Single-Cell Transc...
Discriminative Random Walk with Restart
Dose Response for Omics
Representing and Inferring Single-Cell Trajectories
Dysregulated Pathway Identification Analysis
Background and Pathway Data Used in 'DysPIA'
Clean and Visualize Over Expression Results from 'ConsensusPathDB'
Methods for Closed Testing with Simes Inequality, in Particular Hommel...
A Mixture Model-Based Approach to the Clustering of Microarray Express...
Various Utilities for Microbial Genomics and Metagenomics
Automated Spectral Deconvolution, Alignment, and Metabolite Identifica...
Clustering Algorithm for Data Integration and Disease Subtyping
Finder of Rare Entities (FiRE)
Dithionite Scramblase Assay Analysis
Protein Quantification in Mass Spectrometry-Based Proteomics
Feature Extraction from Biological Sequences
Gene Association Network-Based Pathway Analysis (GANPA)
The GANPA Datasets Package
Identification of Periodically Expressed Genes
Easily Downloads a Gene Expression Dataset from a GEO Code and Retriev...
Modeling and Inferring Gene Networks
Finding the DNA and Protein Sequences of Any Genomic or Proteomic Loci
File Handlers for Genomic Data Analysis
Plot Publication-Grade Gene and Genome Maps
Structural Exploration of the Gene Ontology (GO) Knowledge Base
Interface to the 'g:Profiler' Toolset
Candidate Gene Prioritization for Non-Communicable Diseases Based on F...
Gene Set Analysis
Analyzing Multiple Omics Data with an Offset Approach
RNAseq Visualization Automation
Integrative Conditional Autoregressive Horseshoe Model
Hierarchical Shrinkage Stan Models for Biomarker Selection
Clustering High-Throughput Transcriptome Sequencing (HTS) Data
Analyzing High-Throughput Single Cell Sequencing Data
Gaussian Mixture Model for Multi-Omics Data Integration
Bioinformatics Analysis of T-Cell and B-Cell Immune Repertoires
Imputation for Proteomics
A Collection of Methods for Left-Censored Missing Data Imputation
Immune Cell Gene Signatures for Profiling the Microenvironment of Soli...
Integrating Multiple Modalities of High Throughput Assays Using Item R...
The Integrated and Robust Deconvolution
Calling Copy Number Alterations in Amplicon Sequencing Data
An R Interface to the JBrowse 2 Genome Browser
Joint Sparse Optimization via Proximal Gradient Method for Cell Fate C...
Keen and Reliable Interface Subroutines for Bioinformatic Analysis
Kernel Based Regression Models
Latent Effect Adjustment After Primary Projection
Metabolomics Personalized Pathway Analysis Tool
Lining Up Two Sets of Measurements
An Algorithm for Gene Co-Expression Analysis
Linear Predictor Score, for Binary Inference from Multiple Continuous ...
Lysate and Secretome Peptide Feature Plotter
Analysis of Alternative Polyadenylation Using 3' End-Linked Reads
A Graphical User Interface for Microarray Data Analysis and Annotation
Mapping Markers to the Nearest Genomic Feature
Marker Gene Detection via Penalized Principal Component Analysis
Bayesian Analysis of qRT-PCR Data
Example Metabolomics Data Sets
A Biomarker Validation Approach for Classification and Predicting Surv...
Basic Functions to Investigate Metabolomics Data Matrices
Meta-Analysis for MicroArrays
Meta-Analysis of RNA-Seq Data
Encode "License-Plates" from Sequences and Decode Them Back
Micro-RNA Quality Control and Diagnosis
Multi-Omic Integration via Sparse Singular Value Decomposition
Multivariate Projection Methods
Mixed-Pair Mutual Information Estimators
A Shiny App for Sample Size Estimation in Metabolomic Experiments
MSigDB Gene Sets for Multiple Organisms in a Tidy Data Format
Decipher Mutational Signatures from Somatic Mutational Catalogs
Feature Set Enrichment Analysis for Metabolomics and Transcriptomics
Negative Binomial Models for RNA-Sequencing Data
Handle Ambiguity of Protein Identifications from Shotgun Proteomics
Network-Based Gene Set Analysis
Extending the Newman Studentized Range Statistic to Transcriptomics
Prioritizing Cancer Driver Genes Using Genomics Data
Cell-Type-Specific Association Testing in Bulk Omics Experiments
A Metabolomics Analysis Tool for Intuitive Figures and Convenient Meta...
Estimation of Optimal Number of Biomarkers for Two-Group Microarray Ba...
Circular, Periodic, or Framed Data Clustering: Fast, Optimal, and Repr...
Order-Restricted Information Criterion-Based Clustering Algorithm
Multi-Block Partial Least Squares Discriminant Analysis
Single Cell Analysis and Differential Expression
Data Package for 'pathfindR'
Pathway Based Tumor Mutational Burden
Protein Binding Models
Compute the Label Error of Peak Calls
Disk-Based Constrained Change-Point Detection
Optimal Segmentation Subject to Up-Down Constraints
Permutation Based Gene Expression Pathway Analysis
Sequence ('FASTA'), Annotation ('GFF') and Variants ('VCF') for 17 Sam...
Features Extracted from Position Specific Scoring Matrix (PSSM)
Penalized Multivariate Analysis
Probability of Detection for Qualitative PCR Methods
Classify Digital PCR Droplets by Fitting Fluorescence Populations
Efficient Mixed Model Analysis of Count Data in Large-Scale Genomic Se...
Computational Prediction of Proteins Encoded by Circadian Genes
Sparse Multiple Canonical Correlation Network Analysis Tool
Analysis of Single-Cell Chromatin Data
Quality Report Generation for MaxQuant and mzTab Results
Fitting a Bayesian Sparse Latent Factor Model in Gene Expression Analy...
Core Utilities for Single-Cell RNA-Seq
Log-Linear Poisson Graphical Model with Hot-Deck Multiple Imputation
Proteomics Data Analysis Functions
Retrieve Genomic and Clinical Data from CBioPortal Including TCGA Data
A Universal Differential Expression Prediction Tool for Single-Cell an...
Visualizing and Analyzing Mass Spectrometry Related Data in Proteomics
Biological Sequences Retrieval and Analysis
Weighted Correlation Network Analysis
Construct and Compare scGRN from Single-Cell Transcriptomic Data
Variance-Adjusted Mahalanobis
Learning Causal or Non-Causal Graphical Models Using Information Theor...
Mass Spectrometry Metabolomics Feature Clustering and Interpretation
Spectral Clustering-Based Method for Identifying B Cell Clones
Interpretation of Heterogeneous Single-Cell Gene Expression Data
Surrogate Outcome Regression Analysis
Gene Set Analysis Exploiting Pathway Topology
Turner Miscellaneous
Vector in Partition
Gene Set Analysis Toolkit WebGestaltR
3D Volcano Plots and Polar Plots for Three-Class Data
Identify Mutually Exclusive Mutations
LS-TreeBoost and LAD-TreeBoost for Gene Regulatory Network Reconstruct...
Vertical and Horizontal Inheritance Consistence Analysis
Gene and Exon Data from Ensembl
Single Cell mRNA Soup eXterminator
Methods for Robust Rank Aggregation
Data-Driven Design of Targeted Gene Panels for Estimating Immunotherap...
Correct Bias in DNA Methylation Analyses
Sample Size Calculations for Microarray Experiments
Whitening and High-Dimensional Canonical Correlation Analysis
Systematic Identification of Bimodally Expressed Genes Using RNAseq Da...
The Tail-Rank Statistic
Subnetwork Integration for Multi-Modal Signatures
Entropy Based Method for the Detection of Significant Variation in Gen...
Structural Model for Variances
Time-Course Gene Set Analysis
The First Software for Quantitative Trajectory Inference
Circos 2D Track Plot
Minimal Protein Set Explaining Peptide Spectrum Matches
Signature Overrepresentation Analysis
Yeast-Proteome Secondary-Structure Calculator
Cell Type Identification and Discovery from Single Cell Gene Expressio...
Supervised Clustering of Predictor Variables Such as Genes
Estimating Abundance of Clones from DNA Fragmentation Data
Open GenBank Files
Generate RNA-Seq Data from Gene-Gene Association Networks
Pathway Testing for Longitudinal Omics
Bayesian Structural Equation Modeling in Multiple Omics Data Integrati...
Web-Based Interactive Omics Visualization
Implementation of 'scSorter' Algorithm
Tensor Composition Analysis
In-Silico Knockout Experiments from Single-Cell Gene Regulatory Networ...
R Commander Depth Tools Plug-in
Inferring Functional Gene Co-Expression Networks from Single Cell Data
Visualising Splicing at Single-Cell Resolution
Single Cell Genomics for Enhancing Cell Composition Inference from Bul...
Rapid Reconstruction of Time-Varying Gene Regulatory Networks
Statistical Visualization Tools
Convert Biological ID from RAP or MSU to SYMBOL for Oryza Sativa
Drawing SVG Graphics to Visualize and Map Genome-Wide Data on Idiogram...
Adjacency-Constrained Clustering of a Block-Diagonal Similarity Matrix
An R Implementation of the 'Align-GVGD' Method
Predict Antimicrobial Peptides
Drug Response Modeling and Biomarker Discovery
In-Depth Characterization and Analysis of Mutational Signatures ('ICAM...
Interaction Analysis of Repeated Measure Data
Browse and Query Clinical and Genomic Data from cBioPortal
Download and Import the HUGO Gene Nomenclature Committee ('HGNC') Data...
Provides an R Interface to 'Enrichr'
Selection, Reverse-Engineering and Prediction in Cascade Networks
General Linear Mixed Models for Gene-Level Differential Expression
Given a List of Gene Symbols, Performs Differential Enrichment Analysi...
Identification of Cancer Dysfunctional Subpathway with Omics Data
An Extensible Approach to Flux Balance Analysis
Genome Interval Arithmetic
Network-Based Regularization for Generalized Linear Models
Analysis of Parent-Specific DNA Copy Numbers
NanoString Quality Control Dashboard
Identification of Somatic Mutation-Driven Immune Cells
Open-Source Software for 'Omic' Data Analysis and Visualization
A Tidy Implementation of 'ESTIMATE'
Inferring Developmental Chronologies from Single-Cell RNA Sequencing D...
Multiple Imputation for Proteomics
Experimental Data of Cascade Experiments in Genomics
Network Reverse Engineering with Approximate Bayesian Computation
Simulate Expression Data from 'igraph' Networks
Parallel Mutual Information Estimation for Gene Network Reconstruction
Download and Merge Single-Cell RNA-Seq Data from the PanglaoDB Databas...
PHATE - Potential of Heat-Diffusion for Affinity-Based Transition Embe...
Meta-Analysis of Gene Expression Data
Draw Gene Arrow Maps in 'ggplot2'
Normalize & Denoise Droplet Single Cell Protein Data (CITE-Seq)
Expression Data Analysis and Visualization
Performs Quality Control, Data Normalization, and Batch Effect Correct...
Simultaneous Enrichment Analysis
Biological Entity Dictionary (BED)
Analyses of Protein Post-Translational Modifications
RNA-Seq Generation/Modification for Simulation
Extract, Analyze and Visualize Mutational Signatures for Genomic Varia...
Tools for Single Cell Genomics
Data Structures for Single Cell Data
Deciphering Biological Networks with Patterned Heterogeneous Measureme...
Enrichment Analysis Utilizing Active Subnetworks
Joint Peak Detection in Several ChIP-Seq Samples
LUCID with Multiple Omics Data
Lining Up Two Sets of Measurements
Bottom-Up Proteomics and LiP-MS Quality Control and Data Analysis Tool...
Multiomics Data Integration
Analyze Experimental High-Throughput (Omics) Data
Integrative Pathway Enrichment Analysis of Multivariate Omics Data
The Official SolveBio API Client
Simplified Fetching and Processing of Microarray and RNA-Seq Data