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co-expression

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huangzhii /SALMON

SALMON: Survival Analysis Learning with Multi-Omics Neural Networks

machine-learning deep-learning neural-networks survival-analysis co-expression

UpdatedOct 26, 2024
Python

sigven /oncoEnrichR

Explore the cancer relevance of your gene list

cancer proteins disease-gene-association tcga-data crispr-target protein-protein-interaction co-expression report-generator prioritization genesets high-throughput-screening cancer-survival functional-enrichment-analysis pathway-enrichment-analysis protein-complexes tissue-enrichment-analysis cancer-hallmark-evidence

UpdatedFeb 28, 2025
R

mikelkou /fava

Functional Associations using Variational Autoencoders

deep-learning networks proteomics co-expression networks-biology single-cells

UpdatedFeb 4, 2025
Jupyter Notebook

Kumquatum /GWENA

Gene Co-expression Network analysis pipeline

gene pipeline network-analysis transcriptomics enrichment-analysis co-expression

UpdatedJul 3, 2023
R

Vivianstats /scLink

Inferring gene co-expression networks from single cell gene expression data

gene network single-cell co-expression

UpdatedAug 5, 2022
R

lingfeiwang /normalisr

Causal inference, differential expression, and co-expression for scRNA-seq

scrna-seq single-cell hypothesis-testing differential-expression causal-inference normalization co-expression gene-regulatory-network single-cell-crispr-screening association-testing

UpdatedNov 4, 2021
Python

huangzhii /TSUNAMI

An R software for Gene Co-Expression Analysis

gene preprocessing co-expression

UpdatedSep 14, 2021
R

SoniaRuiz /coexp-website

CoExp website is a web-based tool developed in .NET Core Framework, for querying 109 independent gene co-expression networks from the family of CoExp R packages.

jquery html5 csharp apache mvc-framework mvc-architecture genetic-algorithms salmon kestrel html-css-javascript co-expression netcore3 coexp-webpage

UpdatedSep 12, 2023
JavaScript

oubounyt /SCANet

SCANet is a python package that incorporates the inference of gene co-expression networks from single-cell gene expression data

network single-cell gcn co-expression grn

UpdatedMar 23, 2023
Python

gandallab /C4A-network

Code accompanying the manuscript "Brain gene co-expression networks link complement signaling with convergent synaptic pathology in schizophrenia"

gwas rna-seq co-expression schizophrenia

UpdatedJan 11, 2025
R

mykmal /cowas

Association testing for genetically regulated co-expression.

gwas r genomics proteomics statistical-genetics qtl co-expression

UpdatedJan 7, 2025
R

LinkageIO /cob

The gene CO-expression Browser

visualization browser cytoscapejs camoco co-expression

UpdatedFeb 25, 2020
JavaScript

chemoelectric /objecticon

Object Icon, beginning from a migration to Git of the Subversion athttps://sourceforge.net/p/objecticon/code/ For the original, use branch objecticon-last-svn-commit

programming-language interpreter compiler coroutines graphics-programming object-oriented-programming co-expression procedural-programming goal-directed-evaluation

UpdatedApr 25, 2023
C

ConorGilesDoran /MSc_Thesis_Transcriptomics

Repository for all R scripts and results associated with my research dissertation for the MSc Bioinformatics and Computational Biology degree in University College Cork, 2022.

transcriptomics differential-expression co-expression wgcna functional-enrichment-analysis

UpdatedOct 3, 2022
R

eead-csic-compbio /coexpression_motif_discovery

Discovering cis-regulatory motifs in proximal promoters of plants in RSAT::Plants

modules genomics discovery plant co-expression cis-element

UpdatedJan 30, 2025
HTML

johnlee4 /CoCoCoNet

Conserved and Comparative Co-expression across Diverse Species

gene-expression conservation comparative-genomics co-expression

UpdatedOct 8, 2021
R

akatrib /sys-bio

Curated list of analysis pipelines for biological & clinical interpretation of data-driven findings

bioinformatics systems-biology bioinformatics-pipeline network-analysis pathway-analysis enrichment-analysis protein-protein-interaction co-expression biomedical-data-science omics-data-integration pathway-enrichment-analysis

UpdatedNov 19, 2020
R

Mahsa-Ehsanifard /WGCNA

Weighted Gene Co-expression Network Analysis;

expression transcriptomics gene-expression-profiles co-expression wgcna correlation-analysis wgcna-tutorial

UpdatedAug 14, 2024
R

zy26 /MRHCA-R

MRHCA: a nonparametric statistics based method for hub and co-expression module identification in large gene co-expression network

co-expression statistical-significance mutual-rank

UpdatedJun 5, 2019
R

ToryDeng /LEGEND

LEGEND: An integrative algorithm for identifying co-expressed and cofunctional genes in multimodal transcriptomic sequencing data

co-expression spatial-transcriptomics

UpdatedOct 2, 2024
Python

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