daisybio/MIRACLE

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daisybio/MIRACLE

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Microarray R-based Analysis of Complex Lysate Experiments

OpenLabFramework

A open source framework for research data management. DEMO at https://dockerhts.compbio.sdu.dk/OpenLabFramework/login/auth

data-leakage-ppi-prediction

Code associated with the paper 'Cracking the blackbox of deep sequence-based protein-protein interaction prediction'

TF-Prioritizer

Bioinformatics pipeline to identify differentially active transcription factors between conditions using expression and epigenetic data

SPONGE

Sparse Partial correlation ON Gene Expression - an R package for fast and robust ceRNA network inference

BiCoN

Network Constrained Biclustering PyPI package

epigen

EpiGEN: an epistasis simulation pipeline

namco

ASimulatoR

ASimulatoR: splice-aware RNA-seq data simulation https://doi.org/10.1093/bioinformatics/btab142

circRNA-sponging

keypathwayminer-R

R package for de novo pathway enrichment using KeyPathwayMiner

HiTSeekR

An R shiny web application for the analysis of various types of high-throughput screening data

BiCoN-web

Network Constrained Biclustering (BiCoN) web platform

cyanus

A Systematic Comparison of Differential Analysis Methods for CyTOF Data & CYANUS App

NeEDL

drevalpy

PDAC-molecular-classifier-validation

housekeepr

analysis_of_circRNA_sponges

Pipeline for the systematic analysis of circRNAs that act as miRNA sponges

DysRegNet_package

Inferring patient-specific regulatory alterations

Jupyter Notebook

keypathwayminer-core

Core module of KeyPathwayMiner. Used to build various frontend applications, such as a Cytoscape 3 app.

DysRegNet

SARS-CoV-2-platelets-analysis

Analysis and visualization scripts for Bongiovanni et al., 2020, "SARS-CoV-2 infection is associated with a pro-thrombotic platelet phenotype"

Jupyter Notebook

pathclass

SAVANAH

A web application for sample and plate management of complex high-throughput screening libraries

circRNA-detection

Scripts, documentation and results for the Bachelor Thesis "Analysis of Circular RNAs As miRNA Sponges".

CyTOF_RPs_MPs

BiGAnts-PyPI-package

16S-rRNA-gene-Functional_benchmark_profiling

splicingCREs

Ex-Breast-Cancer-Survival

Jupyter Notebook