An open API service providing repository metadata for many open source software ecosystems.

GitHub topics: pathway-analysis

wikipathways/wikipathways-database

WikiPathways Database

Language: Shell - Size: 394 MB - Last synced at: 3 days ago - Pushed at: 3 days ago - Stars: 7 - Forks: 16

igordot/msigdbr

MSigDB gene sets for multiple organisms in a tidy data format

Language: R - Size: 77.4 MB - Last synced at: 4 days ago - Pushed at: 4 days ago - Stars: 75 - Forks: 14

federicomarini/GeneTonic

Enjoy your transcriptomic data and analysis responsibly - like sipping a cocktail

Language: R - Size: 121 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 78 - Forks: 10

YuLab-SMU/enrichplot

Visualization of Functional Enrichment Result

Language: R - Size: 740 KB - Last synced at: 16 days ago - Pushed at: 16 days ago - Stars: 243 - Forks: 72

reactome/reactome2py

python client for reactome content, analysis, and human functional protein interactions (FI) services api calls.

Language: Python - Size: 337 KB - Last synced at: 5 days ago - Pushed at: over 1 year ago - Stars: 31 - Forks: 9

shawlab-moffitt/PATH-SURVEYOR-Suite

Survival Analysis through the integration of expression data, phenotype data, and clinical data

Language: R - Size: 596 MB - Last synced at: 22 days ago - Pushed at: 23 days ago - Stars: 1 - Forks: 0

PathwayAndDataAnalysis/causalpath

A project for exploring differentially active signaling paths related to proteomics datasets

Language: Java - Size: 12.6 MB - Last synced at: 23 days ago - Pushed at: 23 days ago - Stars: 41 - Forks: 11

markziemann/mitch

An R package for multi-dimensional pathway enrichment analysis

Language: R - Size: 10 MB - Last synced at: 18 days ago - Pushed at: 28 days ago - Stars: 16 - Forks: 4

iVis-at-Bilkent/newt

A web application to visualize and edit pathway models

Language: JavaScript - Size: 50.7 MB - Last synced at: 4 days ago - Pushed at: 4 days ago - Stars: 56 - Forks: 26

iVis-at-Bilkent/pathway-mapper

PathwayMapper: An interactive and collaborative graphical curation tool for cancer pathways

Language: TypeScript - Size: 65.8 MB - Last synced at: 10 days ago - Pushed at: about 1 year ago - Stars: 58 - Forks: 27

sales-lab/graphite

GRAPH Interaction from pathway Topological Environment

Language: R - Size: 33.6 MB - Last synced at: 9 days ago - Pushed at: 30 days ago - Stars: 8 - Forks: 2

cwieder/PathIntegrate

PathIntegrate Python package for pathway-based multi-omics data integration

Language: Jupyter Notebook - Size: 3.84 MB - Last synced at: about 1 month ago - Pushed at: 6 months ago - Stars: 16 - Forks: 1

iVis-at-Bilkent/chise.js

A web application to visualize and edit the pathway models represented by SBGN Process Description Notation

Language: JavaScript - Size: 10.9 MB - Last synced at: 9 days ago - Pushed at: 9 days ago - Stars: 16 - Forks: 6

AmmarRashed/Genobolitics

A bioinformatics tool that integrates gene expression data with metabolic models for pathway-level disease analysis. Extends Metabolitics for more comprehensive systems biology analysis.

Language: Jupyter Notebook - Size: 558 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 1

iiasa/ipcc_sr15_scenario_analysis

Scenario analysis notebooks for the IPCC Special Report on Global Warming of 1.5°C

Language: Jupyter Notebook - Size: 386 KB - Last synced at: 2 days ago - Pushed at: over 4 years ago - Stars: 64 - Forks: 32

nsalomonis/altanalyze

AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-use precompiled graphical user-interface versions available from our website.

Language: Python - Size: 264 MB - Last synced at: 5 days ago - Pushed at: almost 3 years ago - Stars: 103 - Forks: 31

greenelab/PathCORE-T-analysis

This repository is in support of the PathCORE-T paper (https://doi.org/10.1101/147645). It contains all the code and necessary data/metadata to repeat all analyses in the paper.

Language: Jupyter Notebook - Size: 136 MB - Last synced at: 8 days ago - Pushed at: almost 7 years ago - Stars: 8 - Forks: 2

dvklopfenstein/ReactomePy

Explore biomolecular pathways in Reactome from the command-line or a Python script

Language: Python - Size: 17.1 MB - Last synced at: about 1 month ago - Pushed at: 7 months ago - Stars: 23 - Forks: 4

cxli233/ggpathway

A tutorial for pathway visualization using tidyverse, igraph, and ggraph

Size: 472 KB - Last synced at: about 1 month ago - Pushed at: 7 months ago - Stars: 56 - Forks: 6

vikos77/bioinformatics-portfolio

Language: HTML - Size: 5.96 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0

bibymaths/bachelor_thesis

Identification of Potent Biomarkers for Prostate Cancer Through AR, Mapk and M-TOR Signaling Pathways Mining

Language: R - Size: 13.4 MB - Last synced at: about 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0

alaimos/mithril-standalone

This repository hosts the java implementation of MITHrIL and SPECIFIC

Language: Java - Size: 223 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0

ylyu28/sspa-PARAFAC

Complete scripts used to produce the results of Imperial MRes Biomedical Research - Data Science 2024-2025 Project 1.

Language: Jupyter Notebook - Size: 0 Bytes - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0

krassowski/gsea-api

Pandas API for multiple Gene Set Enrichment Analysis implementations in Python (GSEApy, cudaGSEA, GSEA)

Language: Python - Size: 162 KB - Last synced at: 24 days ago - Pushed at: about 2 years ago - Stars: 14 - Forks: 2

LucasESBS/vega

VEGA: VAE Enhanced by Gene Annotations

Language: Python - Size: 26.1 MB - Last synced at: 1 day ago - Pushed at: about 3 years ago - Stars: 15 - Forks: 2

ouzounis/MjCyc

MjCyc Tier 2 PGDB at BioCyc

Size: 0 Bytes - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 1 - Forks: 0

AlexsLemonade/refinebio-examples

Example workflows for refine.bio data

Language: HTML - Size: 783 MB - Last synced at: about 1 month ago - Pushed at: 4 months ago - Stars: 11 - Forks: 6

Akmazad/rXTalkViz

Network medicine-based Quantification and the grammar of graphics-based visualization of functional crosstalks from Enrichment analysis

Language: JavaScript - Size: 75.4 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 1

llrs/BioCor

Package to calculate functional similarity between genes https://biocor.llrs.dev

Language: R - Size: 9.47 MB - Last synced at: about 1 month ago - Pushed at: 5 months ago - Stars: 14 - Forks: 1

namini94/EXPORT

EXPORT: Explainable VAE for ordinally perturbed transcriptomics data

Language: Scheme - Size: 1.4 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 1 - Forks: 0

qbic-pipelines/rnadeseq

Differential gene expression analysis and pathway analysis of RNAseq data

Language: Nextflow - Size: 62.6 MB - Last synced at: 7 days ago - Pushed at: 7 days ago - Stars: 32 - Forks: 22

cwieder/py-ssPA

Single sample pathway analysis tools for omics data

Language: Jupyter Notebook - Size: 8.07 MB - Last synced at: 3 days ago - Pushed at: 6 months ago - Stars: 12 - Forks: 5

iVis-at-Bilkent/syblars

SyBLaRS: Systems Biology Layout & Rendering Service

Language: JavaScript - Size: 21.4 MB - Last synced at: 5 days ago - Pushed at: 6 months ago - Stars: 12 - Forks: 2

l0andr/pathways-dotplot

A Python library and command-line tool for creating dot-plots for pathways and enrichment analysis.

Language: Python - Size: 24.4 KB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 2 - Forks: 1

futianfan/GenoCraft

GenoCraft: A Comprehensive, User-Friendly Web Platform for High-Throughput Omics Data Analysis and Visualization (https://arxiv.org/pdf/2312.14249)

Language: SCSS - Size: 69.9 MB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 14 - Forks: 0

PathwayMerger/PathMe

Harmonizing pathway databases using Biological Expression Language (BEL)

Language: Python - Size: 698 KB - Last synced at: 3 days ago - Pushed at: 11 months ago - Stars: 19 - Forks: 2

ComPath/ComPath

A web application for exploring, analyzing, and curating pathway databases

Language: JavaScript - Size: 28.6 MB - Last synced at: 5 days ago - Pushed at: almost 2 years ago - Stars: 13 - Forks: 0

noobCoding/CellEnrich Fork of jhk0530/CellEnrich

Pathway enrichment analysis / visualize for Single Cell Data

Language: R - Size: 364 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 1 - Forks: 0

jackbibby1/SCPA

R package for pathway analysis in scRNA-seq data

Language: R - Size: 41.2 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 57 - Forks: 5

willgryan/PAVER

PAVER: Pathway Analysis Visualization with Embedding Representations

Language: R - Size: 920 KB - Last synced at: about 1 month ago - Pushed at: 10 months ago - Stars: 1 - Forks: 2

hancockinformatics/clusterPathways

Use Jaccard index and constituent genes to identify groups of similar pathways

Language: R - Size: 1.06 MB - Last synced at: 10 months ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0

mcrewcow/RGC_Dnmt3a_pONC2d_paper

Retinal ganglion cells regeneration in 2 days post optic nerve crush retina | Lydia Tai | Dong Feng Chen Lab collaboration | Schepens Eye Research Institute, Mass General Hospital, Harvard Medical School

Language: R - Size: 97.7 KB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 1 - Forks: 1

PathwayMerger/PathMe-Viewer

A web application for visualizing and exploring pathway knowledge in Biological Expression Language (BEL)

Language: JavaScript - Size: 1.13 MB - Last synced at: 17 days ago - Pushed at: over 5 years ago - Stars: 6 - Forks: 3

eriklarsen4/RNAseq

Template R code for bioinformatics analysis pipeline of transcriptomic Illumina datasets

Language: HTML - Size: 14 MB - Last synced at: 10 months ago - Pushed at: 12 months ago - Stars: 5 - Forks: 0

CCBR/MAAPster

MAAPster is a comprehensive tool to perform transcriptome analysis of human or mouse Affymetrix gene expression data

Language: R - Size: 50.5 MB - Last synced at: 12 months ago - Pushed at: over 1 year ago - Stars: 9 - Forks: 6

markziemann/mitch_legacy

An R package for multi-dimensional pathway enrichment analysis (legacy repo)

Language: R - Size: 78.5 MB - Last synced at: about 1 year ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

sykhro/cancol-analysis 📦

Language: Jupyter Notebook - Size: 41.3 MB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

meringlab/annotation_system_assessment

Snakemake pipeline to benchmark 11 functional pathway annotation systems

Language: Python - Size: 7.1 MB - Last synced at: about 1 year ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

OICR/mp-biopath

Mathematical Programming tool for inferring node values in perturbed biological pathways.

Language: Julia - Size: 4.31 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 4 - Forks: 0

DecoPath/DecoPath

A web application for visualizing and exploring the consensus across pathway enrichment results

Language: Python - Size: 27.1 MB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 2 - Forks: 1

lemaslab/rump

A Reproducible Untargeted Metabolomics Data Processing Pipeline

Language: HTML - Size: 2.76 GB - Last synced at: about 1 year ago - Pushed at: about 4 years ago - Stars: 10 - Forks: 8

wikipathways/summit2018

WikiPathways Summit Planning

Size: 2.93 KB - Last synced at: about 1 year ago - Pushed at: over 6 years ago - Stars: 2 - Forks: 0

greenelab/GEA_Community_Detection

Overrepresentation analysis for KEGG and PID pathways using community detection

Language: Python - Size: 5 MB - Last synced at: 8 days ago - Pushed at: over 7 years ago - Stars: 7 - Forks: 6

knowmics-lab/RNAdetector

RNAdetector: a free user-friendly and stand-alone software for RNA-Seq data analysis

Language: JavaScript - Size: 73.2 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 8 - Forks: 8

pathwayforte/pathway-forte

A Python package for benchmarking pathway database with functional enrichment and classification methods

Language: Python - Size: 2.13 MB - Last synced at: about 1 year ago - Pushed at: about 4 years ago - Stars: 13 - Forks: 6

elixir-luxembourg/BH2020-galaxy-dpmaps

A github repo for the BioHackathon Europe 2020 "An interface between Galaxy and disease/pathway maps"

Language: JavaScript - Size: 171 KB - Last synced at: 6 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

CBFLivUni/SkeletalVis-Transcriptomics

Nextflow pipeline for microarray and RNA-seq

Language: R - Size: 11.6 MB - Last synced at: 6 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

mims-harvard/pathways

Disease pathways in the human interactome

Language: Python - Size: 1.46 MB - Last synced at: about 1 year ago - Pushed at: about 7 years ago - Stars: 21 - Forks: 6

raeslab/GMMs

A manually curated database of human gut metabolic modules.

Size: 13.7 MB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 14 - Forks: 5

PathwayAnalysisPlatform/PathwayMatcher_Dev 📦

PathwayMatcher is a free, open-source software to search for pathways related to a list of proteins in Reactome. This repository is the development repository. For the latest version see: https://github.com/PathwayAnalysisPlatform/PathwayMatcher

Language: Java - Size: 1.72 GB - Last synced at: over 1 year ago - Pushed at: about 6 years ago - Stars: 6 - Forks: 1

omixer/omixer-rpmR

An R interface to the omixer-rpm for turning metagenomic functional profiles into pathway/module profiles

Language: R - Size: 2.99 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 9 - Forks: 5

hagax8/PathAnalyzor

Just another wrapper for pathway analysis using MAGMA

Language: Shell - Size: 28.4 MB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 1 - Forks: 0

mjr129/metaboclust

█ 𝐓𝐇𝐈𝐒 𝐈𝐒 𝐀 𝐌𝐈𝐑𝐑𝐎𝐑 𝐎𝐅 𝐓𝐇𝐄 𝐒𝐀𝐌𝐄 𝐑𝐄𝐏𝐎𝐒𝐈𝐓𝐎𝐑𝐘 𝐎𝐍 𝐁𝐈𝐓𝐁𝐔𝐂𝐊𝐄𝐓 – 𝐓𝐇𝐈𝐒 𝐏𝐀𝐆𝐄 𝐈𝐒 𝐍𝐎𝐓 𝐌𝐎𝐍𝐈𝐓𝐎𝐑𝐄𝐃 – 𝐏𝐋𝐄𝐀𝐒𝐄 𝐒𝐄𝐄 𝐓𝐇𝐄 𝐁𝐈𝐓𝐁𝐔𝐂𝐊𝐄𝐓 𝐏𝐀𝐆𝐄 𝐅𝐎𝐑 𝐓𝐇𝐄 𝐋𝐀𝐓𝐄𝐒𝐓 𝐃𝐄𝐓𝐀𝐈𝐋𝐒

Language: C# - Size: 7.95 MB - Last synced at: over 1 year ago - Pushed at: over 7 years ago - Stars: 3 - Forks: 2

kn-bibs/pathways-analysis

Testing, development environment for a new project of KN BIBS

Language: Python - Size: 147 KB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 2 - Forks: 10

raeslab/omixer-rpm

A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.

Language: Java - Size: 112 KB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 23 - Forks: 7

arnaudporet/pathrider

Finding paths of interest in networks

Language: Go - Size: 2.3 MB - Last synced at: 11 months ago - Pushed at: almost 3 years ago - Stars: 3 - Forks: 2

NKI-CCB/flexgsea-r

Flexible gene set enrichment analysis

Language: R - Size: 90.8 KB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 10 - Forks: 2

pasculorente/diagram-exporter-example

An example on how to use reactome Rest API

Language: Jupyter Notebook - Size: 2.91 MB - Last synced at: almost 2 years ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0

pasculorente/diagram-exporter Fork of reactome-pwp/diagram-exporter 📦

Exporter of the diagram layout to different formats

Language: Java - Size: 10.5 MB - Last synced at: almost 2 years ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0

malhamdoosh/EGSEA

This package implements the Ensemble of Gene Set Enrichment Analyses (EGSEA) method for gene set testing.

Language: R - Size: 5.6 MB - Last synced at: 6 months ago - Pushed at: over 1 year ago - Stars: 9 - Forks: 4

collaborativebioinformatics/Disease_subsetting

Colorectal cancer CMs subtyping and personalized medication recommendation based on RNA seq pathway analysis

Language: Jupyter Notebook - Size: 761 KB - Last synced at: 17 days ago - Pushed at: about 3 years ago - Stars: 9 - Forks: 2

decodebiology/geneSCF_inactive

GeneSCF moved to a dedicated GitHub page, https://github.com/genescf/GeneSCF

Language: Perl - Size: 53.8 MB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 20 - Forks: 8

albertme0308/GSApp

GSApp Pathway Analysis

Language: HTML - Size: 10.2 MB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

ComPath/compath-resources

This repository contains the different resources derived or generated using ComPath

Language: Jupyter Notebook - Size: 3.58 MB - Last synced at: about 1 year ago - Pushed at: almost 4 years ago - Stars: 8 - Forks: 1

Micromeda/pygenprop

A python library for programmatic usage of EBI InterPro Genome Properties.

Language: Python - Size: 4.52 MB - Last synced at: 8 days ago - Pushed at: about 2 years ago - Stars: 9 - Forks: 4

llrs/GSEAdv 📦

Package to analyse gene sets

Language: R - Size: 500 KB - Last synced at: 6 months ago - Pushed at: over 6 years ago - Stars: 5 - Forks: 1

ComPath/ComPath-Utils 📦

A repository containing abstract classes that Bio2BEL repos should extend to be adapted to the Compath environment

Size: 75.2 KB - Last synced at: 9 months ago - Pushed at: about 5 years ago - Stars: 0 - Forks: 0

nedaghohabi/Colorectal_Cancer_Subsetting Fork of collaborativebioinformatics/Disease_subsetting

Colorectal cancer CMSs subtyping and personalized medication recommendation based on RNA seq pathway analysis

Language: Jupyter Notebook - Size: 651 KB - Last synced at: 17 days ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

shawlab-moffitt/DRPPM-PATH-SURVEIOR

Survival Analysis through the integration of expression data, phenotype data, and clinical data

Language: R - Size: 392 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

santurini/DAG-Linkage-Analysis-in-R

Implementing the Linkage and Pathway Universal Tests using the clrdag package for Direceted Acyclic Graphs. Testing the two tests on cytometry data to analyze the links.

Language: HTML - Size: 947 KB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

niaid/pathways

Training materials related to pathways data analysis

Size: 2.93 KB - Last synced at: 2 months ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

draeger-lab/InCroMAP

Integrated analysis of Cross-platform MicroArray and Pathway data

Language: Java - Size: 382 MB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 2 - Forks: 2

hallamlab/chap

CHAP: Modeling Metabolic Pathways as Groups (with Augmentation)

Language: Python - Size: 354 KB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 1

CoXPath/CoXPath

Scripts and data from "Towards a global investigation of transcriptomic signatures through co-expression networks and pathway knowledge for the identification of disease mechanisms"

Language: Jupyter Notebook - Size: 49.2 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 3 - Forks: 4

genepattern/CellFie

Language: HTML - Size: 3.54 MB - Last synced at: 3 months ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 2

BaderLab/POPPATHR

Population-based pathway analysis of SNP-SNP coevolution

Language: R - Size: 14.1 MB - Last synced at: 4 days ago - Pushed at: almost 4 years ago - Stars: 1 - Forks: 0

bio2bel/msig

Integration of pathway-related information from MSigDB in BEL

Language: Python - Size: 66.4 KB - Last synced at: 23 days ago - Pushed at: over 4 years ago - Stars: 2 - Forks: 0

pathwayforte/results

Results of the evaluation of pathway databases using TCGA datasets

Language: Jupyter Notebook - Size: 13.5 MB - Last synced at: about 1 month ago - Pushed at: about 5 years ago - Stars: 6 - Forks: 0

samanwoy1989/septic_shock_metaanalysis

This repository contains the code for the project: Transcriptomic meta-analysis reveals up-regulation of gene expression functional in osteoclast differentiation in human septic shock

Language: R - Size: 842 KB - Last synced at: 11 months ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0

prody/coMD

This package runs collective molecular dynamics simulations, where collective motions from anisotropic network model normal mode analysis drive all-atom dynamics through targeted molecular dynamics simulations and energy minimization

Language: Rich Text Format - Size: 415 KB - Last synced at: about 1 year ago - Pushed at: almost 5 years ago - Stars: 1 - Forks: 6

alaimos/SPECifIC

SPECifIC - Sub-Pathway ExtraCtor and enrICher

Language: JavaScript - Size: 34.5 MB - Last synced at: about 2 years ago - Pushed at: about 8 years ago - Stars: 1 - Forks: 0

SteveLane/hierarch-path

Investigating the use of hierarchical modelling for pathway analyses

Language: R - Size: 51.8 KB - Last synced at: about 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0

ComPath/ComPath-HGNC

A wrapper around Bio2BEL HGNC for ComPath

Language: Python - Size: 32.2 KB - Last synced at: 29 days ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 0

llrs/pathways-study

Analyze and compare different pathway resources

Language: R - Size: 4.88 KB - Last synced at: about 1 month ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 0

gloriachin/PathwayEenrichmentAnalysis

Language: Python - Size: 3.91 KB - Last synced at: almost 2 years ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 0

egonw/knime-wikipathways

KNIME nodes for WikiPathways.

Language: Java - Size: 46.9 KB - Last synced at: about 2 months ago - Pushed at: about 7 years ago - Stars: 0 - Forks: 0

Related Keywords
pathway-analysis 96 bioinformatics 34 pathways 16 r 12 systems-biology 11 visualization 10 enrichment-analysis 8 pathway-enrichment-analysis 8 transcriptomics 8 gene-expression 7 metabolomics 6 reactome 6 gsea 6 shiny 5 rna-seq 5 rna-seq-analysis 5 gene-set-enrichment 5 network-visualization 5 single-cell 5 gene-sets 5 genomics 5 differential-expression 4 metagenomics 4 metabolic-reconstruction 4 bioinformatics-pipeline 4 computational-biology 3 machine-learning 3 pathway-tools 3 clustering 3 network-analysis 3 kegg-pathway 3 bioinformatics-analysis 3 nextflow 3 biological-networks 3 drug-discovery 3 reproducible-research 3 rna-seq-data 3 wikipathways 3 enrichment 3 biology 3 msigdb 2 networks 2 heatmap 2 benchmarking 2 system-biology 2 epigenetics 2 disease-modeling 2 python 2 omics 2 rnaseq 2 microarray 2 bioconductor 2 bioconductor-package 2 transcriptome 2 bulk-rna-seq 2 molecular-biology 2 cancer-subtype 2 pathway-prediction 2 deseq2 2 kegg 2 data-visualization 2 network-medicine 2 biological-data-analysis 2 gui 2 biocyc 2 pathway-models 2 sbgn 2 hazard-ratios 2 docker 2 editor 2 gene-regulation 2 graphviz 2 cox-regression 2 microarray-data-analysis 2 multi-omics-integration 2 mass-spectrometry 2 ssgsea 2 downstream-paths 1 network-science 1 notebook-jupyter 1 data-exploration 1 time-series 1 colorectal-cancer 1 lc-ms 1 bioinfomatics 1 quality-control 1 knime 1 ggplot2 1 workflow 1 gc-ms 1 chromatography 1 volcano-plot 1 development 1 batch-correction 1 proteoforms 1 gwas-tools 1 summit 1 analysis 1 detection-network 1 statistical-analysis 1