GitHub topics: reactome
geneontology/reactome-go-cams
A set of GO-CAMs built automatically from Reactome pathways.
Size: 150 MB - Last synced at: 4 days ago - Pushed at: 5 days ago - Stars: 1 - Forks: 0
cwieder/PathIntegrate
PathIntegrate Python package for pathway-based multi-omics data integration
Language: Jupyter Notebook - Size: 3.84 MB - Last synced at: 9 days ago - Pushed at: 5 months ago - Stars: 16 - Forks: 1
dvklopfenstein/ReactomePy
Explore biomolecular pathways in Reactome from the command-line or a Python script
Language: Python - Size: 17.1 MB - Last synced at: 18 days ago - Pushed at: 6 months ago - Stars: 23 - Forks: 4
moosa-r/rbioapi
rbioapi: User-Friendly R Interface to Biologic Web Services' API
Language: R - Size: 40.5 MB - Last synced at: 20 days ago - Pushed at: 3 months ago - Stars: 21 - Forks: 1
merlinis12/Downstream-Analysis-of-RNA-Seq-Results
Downstream Analysis of RNA-Seq Results in R: GSEA, PPI Networks, and Biological Interpretation
Language: HTML - Size: 15.4 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0
riyavsinha/reactome-anywidget
A AnyWidget component for interactive embedding of Reactome Pathway browsers
Language: Python - Size: 68.4 KB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0
linas/biome-distribution
Research into statistical distributions of genomes, proteomes and reactomes
Language: Scheme - Size: 14.2 MB - Last synced at: about 1 month ago - Pushed at: about 3 years ago - Stars: 6 - Forks: 0
EBI-EMBL-Bioinformatics-tools/Bardet-Biedl-Syndrome
BBS Project developed by Ronald Pardo, Ana Sofia Villa and Gabriela Moreno for the course of EBI tools @ Universidad de los Andes 2024-02.
Language: Jupyter Notebook - Size: 10.7 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
RichardMatzko/BioNexusSentinel
A research biochemical network explorer and genetic cytohistological encyclopedia.
Language: Python - Size: 19.3 MB - Last synced at: 9 months ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 0
francescopatane96/RNA-seq_Pipeline
Deposited R scripts allow to execute a complete RNA-seq Pipeline, starting from sequence reads (FASTQ files) to mapping/annotate the genome using a reference, to counts the number of reads for every gene. when raw counts are obtained, DESeq2 module permits to find differentially expressed genes (DEG) and to perform statistical analysis. The last module of the project allows you to use clusterprofiler in order to perform ORA and GSEA analysis (over-representation analysis and gene set enrichment analysis) using GeneOntology (GO), disease ontology (DO), KEGG, reactome eg...
Language: Jupyter Notebook - Size: 31.3 KB - Last synced at: 9 months ago - Pushed at: about 2 years ago - Stars: 2 - Forks: 1
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
aprezvykh/bioinformatics
some scripts to process transcriptomics and Chip-seq data
Language: R - Size: 183 MB - Last synced at: over 1 year ago - Pushed at: almost 6 years ago - Stars: 1 - Forks: 1
arnaudporet/sbgn2sif
Converting SBGN encoded pathways to the SIF file format
Language: Python - Size: 185 KB - Last synced at: over 1 year ago - Pushed at: almost 5 years ago - Stars: 2 - Forks: 2
pasculorente/fireworks-exporter Fork of reactome-pwp/fireworks-exporter 📦
Service to generate images of top level pathway view (the fireworks).
Language: Java - Size: 9.47 MB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
pasculorente/diagram-exporter-example
An example on how to use reactome Rest API
Language: Jupyter Notebook - Size: 2.91 MB - Last synced at: over 1 year 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: over 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
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
wikipathways/reactome2gpml-converter
Converts Reactome pathways to GPML format
Language: Java - Size: 16.1 MB - Last synced at: 12 months ago - Pushed at: about 2 years ago - Stars: 2 - Forks: 5
bio2bel/reactome
Integration of pathway-related information from Reactome in BEL
Language: Python - Size: 1.21 MB - Last synced at: 8 months ago - Pushed at: over 4 years ago - Stars: 5 - Forks: 1
marinoandrea/stargate-x
Python implementation of a bipartite directed multigraph extracted from the Reactome biological pathway database.
Language: Python - Size: 67.8 MB - Last synced at: about 1 month ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 1
kkmann/pwcuratr
Curate gene pathway clusters using functional interactions
Language: R - Size: 68.7 MB - Last synced at: 2 days ago - Pushed at: about 5 years ago - Stars: 0 - Forks: 0
pratiklodha/graphql Fork of reactome/graphql
Google Summer Of Code 2020.
Size: 1.01 MB - Last synced at: about 2 years ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0
cannin/sbgn2sif Fork of arnaudporet/sbgn2sif
Converting SBGN-encoded pathways to the SIF file format
Language: Python - Size: 187 KB - Last synced at: about 2 years ago - Pushed at: almost 5 years ago - Stars: 2 - Forks: 1
dhimmel/pathways
A compilation of pathway gene sets
Language: Jupyter Notebook - Size: 2.38 MB - Last synced at: 29 days ago - Pushed at: about 9 years ago - Stars: 2 - Forks: 3
nursa-reactome/gsea-desktop Fork of GSEA-MSigDB/gsea-desktop
This fork is intended solely for generating a GSEA jar file that is compatible with Reactome.
Language: Java - Size: 13.2 MB - Last synced at: about 2 years ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0
Caleydo/pathfinder_graph_reactome
pathfinder http://reactome.org/ graph binding
Language: Python - Size: 10.7 KB - Last synced at: 4 months ago - Pushed at: almost 8 years ago - Stars: 0 - Forks: 1
