pathwayforte / pathway-forte
A Python package for benchmarking pathway database with functional enrichment and classification methods
☆13Updated 4 years ago
Alternatives and similar repositories for pathway-forte:
Users that are interested in pathway-forte are comparing it to the libraries listed below
- Tools Databases Resources in Metabolomics & Integrated Omics in 2015-2016☆12Updated 5 years ago
- Companion to "A genome-wide almanac of co-essential modules assigns function to uncharacterized genes" (https://doi.org/10.1101/827071)☆27Updated 2 years ago
- Harmonizing pathway databases using Biological Expression Language (BEL)☆19Updated 10 months ago
- A Python package for gene network analysis☆32Updated 2 years ago
- Tools related to the Genomics of Drug Sensitivity in Cancer (GDSC) projects (http://www.cancerrxgene.org/ )☆36Updated 3 years ago
- A Bio2BEL package for integrating pathway-related information from KEGG in BEL☆13Updated 3 years ago
- A metadata commons to store research software metadata☆41Updated last week
- Connect the dots in networks.☆18Updated 4 years ago
- FUNctional toolKIt platform for multi-omic functional analysis. An standardised pipeline to analysis transcriptomic, proteomic, phospho…☆13Updated 3 years ago
- A GenePattern module for running the ssGSEA method☆13Updated 2 months ago
- Target prioritization using network representation learning☆11Updated 3 years ago
- ☆19Updated 2 years ago
- MeSH Enrichment and Semantic analyses☆12Updated 2 weeks ago
- A Snakemake pipeline for quality control and reproducible processing of chromatin profiling data☆20Updated 3 years ago
- An R package to fit dose response curves for data from the Genomics of Drug Sensitivity of Cancer (GDSC) project.☆25Updated last year
- Data Integration tool utilizing network information for predictive analyses☆16Updated last year
- A collection of open source bioinformatics tools developed and used by Addgene.☆11Updated last month
- A pipeline to rapidly detect exogenous DNA integration sites using DNA or RNA paired-end sequencing data☆12Updated 2 years ago
- The KEGGgraph package to parse KEGG pathways in R into graph objects☆13Updated 3 weeks ago
- Nextflow-powered MS-DIAL☆10Updated 3 months ago
- R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)☆24Updated this week
- Summary statistics for repertoires☆16Updated 2 years ago
- PyIOmica (pyiomica) is a Python package for omics analyses.☆15Updated 2 years ago
- This is the public repository for the EPIC tool.☆17Updated 2 years ago
- This is the GitHub repository for our recent study "A comprehensive analysis of the usability and archival stability of omics computation…☆20Updated 2 years ago
- An automated pipe for reproducible RNA-seq analysis with the minimal efforts from researchers. You only need to provide the taxa name and…☆13Updated 3 years ago
- ☆14Updated 6 years ago
- A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)☆21Updated 3 years ago
- Identify and quantify MHC eluted peptides from mass spectrometry raw data☆35Updated last week
- Template for building a bioconductor workshop package using github actions☆20Updated 9 months ago