a-r-j/graphein

Protein Graph Library

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liulab-dfci/MAESTRO

Single-cell Transcriptome and Regulome Analysis Pipeline

Language: C - Size: 203 MB - Last synced at: 5 days ago - Pushed at: over 2 years ago - Stars: 289 - Forks: 77

MoltenEcdysone09/GRiNS

Gene Regulatory Interaction Network Simulator - GRiNS

Language: Python - Size: 76.6 MB - Last synced at: 24 days ago - Pushed at: 24 days ago - Stars: 5 - Forks: 2

bnediction/bonesistools

BoNesisTools is a python package proposing bioinformatics tools for upstream and downstream analysis of BoNesis framework

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aaronkiggen/Daphnia-phd

My attempt at a docterate

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ulysseherbach/harissa

Simulation and inference of gene regulatory networks based on transcriptional bursting

Language: Python - Size: 1.46 MB - Last synced at: 7 days ago - Pushed at: 3 months ago - Stars: 10 - Forks: 1

cailab-tamu/scTenifoldNet

A R/MATLAB package to construct and compare gene regulatory networks from single-cell transcriptomic data

Language: R - Size: 1.11 GB - Last synced at: 24 days ago - Pushed at: 8 months ago - Stars: 23 - Forks: 4

TomKellyGenetics/graphsim

R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)

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calebclayreagor/DELAY

Depicting pseudotime-lagged causality for accurate gene-regulatory inference

Language: Python - Size: 359 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 6 - Forks: 0

JBris/nextflow-graph-machine-learning

A Nextflow pipeline demonstrating how to train graph neural networks for gene regulatory network reconstruction using DREAM5 data.

Language: Python - Size: 5.69 MB - Last synced at: 2 months ago - Pushed at: 10 months ago - Stars: 5 - Forks: 1

WPZgithub/CEFCON

Deciphering driver regulators of cell fate decisions from single-cell RNA-seq data

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harissa-framework/harissa

Simulation and inference of gene regulatory networks based on transcriptional bursting

Language: Python - Size: 7.04 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0

AntoinePassemiers/PORTIA-Manuscript

Source code for the paper "Fast and Accurate Inference of Gene Regulatory Networks through Robust Precision Matrix Estimation", by Passemiers et al.

Language: Python - Size: 165 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 6 - Forks: 0

Neelhpatel2011/GRN-reconstruction-RFR

Gene regulatory network reconstruction using random forest regression from only gene expression data from Single Cell RNA Seq Data. This project consisted of feature importance extraction and exploring different methods to investigate different and unique ways to extract feature importance to construct a gene regulatory network.

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lab319/GRNs_nonlinear_ODEs

Language: Python - Size: 5.49 MB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 4 - Forks: 1

ashleymaeconard/TIMEOR

TIMEOR: Trajectory Inference and Mechanism Exploration with Omics Data in R

Language: R - Size: 404 MB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 17 - Forks: 4

LeonardoAgasso/Ohnomirna

Retrieving and analyzing WGD-derived micro-RNA pairs from in the human genome

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niaid/Gene_Regulatory_Networks

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javiegal/neurogenpy

Python package for estimating GRNs with Bayesian networks.

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NYXFLOWER/DrugDiscovery

An explainable inductive learning model on gene regulatory and toxicogenomic knowledge graph (under development...)

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yukuntan92/PALLAS

A tool for gene regulatory inference

Language: Python - Size: 118 KB - Last synced at: almost 2 years ago - Pushed at: about 5 years ago - Stars: 4 - Forks: 0

uds-helms/MutaNET

Automated analysis tool for mutations in promoters, transcription factor binding sites, coding regions and protein domains in the context of gene regulatory networks.

Language: Python - Size: 333 MB - Last synced at: 9 months ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 1

amlalejini/ALife-2020--SignalGP-Genetic-Regulation

Supplemental material associated with ALife 2020 conference submission.

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