sr-m7md/tANS-Integration

📦 Integrate the tANS algorithm into ContikiNG for efficient data compression, reducing transmission size and energy use in IoT devices.

Language: C - Size: 2.07 MB - Last synced at: about 20 hours ago - Pushed at: about 22 hours ago - Stars: 0 - Forks: 0

seandavi/awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

Size: 1.26 MB - Last synced at: 1 day ago - Pushed at: 11 days ago - Stars: 3,488 - Forks: 1,037

BgeeDB/bgee_web

React code of the Bgee frontend

Language: JavaScript - Size: 123 MB - Last synced at: 3 days ago - Pushed at: 3 days ago - Stars: 1 - Forks: 5

junjunlab/ClusterGVis

One-step to Cluster and Visualize Gene Expression Matrix

Language: R - Size: 19.9 MB - Last synced at: 3 days ago - Pushed at: 3 days ago - Stars: 320 - Forks: 28

helicalAI/helical

A framework for state-of-the-art pre-trained bio foundation models on genomics and transcriptomics modalities.

Language: Python - Size: 20.7 MB - Last synced at: about 20 hours ago - Pushed at: 9 days ago - Stars: 148 - Forks: 25

broadinstitute/Tangram

Spatial alignment of single cell transcriptomic data.

Language: Jupyter Notebook - Size: 133 MB - Last synced at: 1 day ago - Pushed at: 2 months ago - Stars: 320 - Forks: 60

jonbra/jonbra.github.io Fork of mmistakes/minimal-mistakes

Testing how to use Jekyll and GitHub Pages to make a webiste.

Language: SCSS - Size: 101 MB - Last synced at: 8 days ago - Pushed at: 8 days ago - Stars: 1 - Forks: 2

mzguntalan/zytome

Zytome is declarative library for handling gene expression data for various data portals or datasets.

Language: Python - Size: 39.1 KB - Last synced at: 8 days ago - Pushed at: 8 days ago - Stars: 0 - Forks: 1

MoseleyBioinformaticsLab/categoryCompare2

Enables Gene Ontology (and other feature annotation) enrichment calculations and comparisons between feature sets.

Language: R - Size: 63.5 MB - Last synced at: 8 days ago - Pushed at: 8 days ago - Stars: 1 - Forks: 1

IGS/gEAR

The gEAR Portal was created as a data archive and viewer for gene expression data including microarrays, bulk RNA-Seq, single-cell RNA-Seq and more.

Language: Jupyter Notebook - Size: 248 MB - Last synced at: 4 days ago - Pushed at: 4 days ago - Stars: 16 - Forks: 5

MaayanLab/Playbook-Workflow-Builder

A repository for the Playbook Workflow Builder project.

Language: TypeScript - Size: 20.8 MB - Last synced at: 9 days ago - Pushed at: 10 days ago - Stars: 22 - Forks: 19

drostlab/myTAI

Evolutionary Transcriptomics with R

Language: R - Size: 182 MB - Last synced at: 10 days ago - Pushed at: 10 days ago - Stars: 45 - Forks: 18

sheltzer-lab/DosageCompensationFactors

This project contains the code for the manuscript "Explainable Machine Learning Identifies Factors for Dosage Compensation in Aneuploid Human Cancer Cells" by Heller et al. (https://doi.org/10.1101/2025.05.12.653427).

Language: R - Size: 1.27 MB - Last synced at: 10 days ago - Pushed at: 10 days ago - Stars: 1 - Forks: 0

DiseaseTranscriptomicsLab/CHARM

Comprehensive Hub for Alternative Regulatory Mapping

Language: R - Size: 41 KB - Last synced at: 10 days ago - Pushed at: 11 days ago - Stars: 0 - Forks: 0

marshall-lab/damidBind

The damidBind R package provides a means of determining differential binding/gene transcription/chromatin accessibility for DamID-seq data..

Language: R - Size: 6.32 MB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 0 - Forks: 0

TissUUmaps/TissUUmapsCore 📦

TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUmaps can be used as a web service or locally in your computer, and allows users to share regions of interest and local statistics.

Language: JavaScript - Size: 14.4 MB - Last synced at: 6 days ago - Pushed at: over 2 years ago - Stars: 24 - Forks: 3

Adibvafa/CodonTransformer

CodonTransformer: The ultimate tool for codon optimization, optimizing DNA sequences for heterologous protein expression across 164 species.

Language: Python - Size: 20.4 MB - Last synced at: 9 days ago - Pushed at: about 1 month ago - Stars: 172 - Forks: 23

NKI-CCB/sobolev_alignment

Sobolev alignment of deep probabilistic models for comparing single cell profiles

Language: Python - Size: 3.61 MB - Last synced at: 12 days ago - Pushed at: 12 days ago - Stars: 6 - Forks: 2

QuangHa2k1/awesome-express

Enhanced Express framework with built-in HTTP/2 support, CLI scaffolding tools, and seamless JWT authentication for modern Node.js applications.

Language: TypeScript - Size: 159 KB - Last synced at: 17 days ago - Pushed at: 17 days ago - Stars: 0 - Forks: 0

QuadraTabulator/BrarAvgGeneExp-2024

My Spring 2024 term project for NYU's Applied Genomics graduate course (M.S. Biology). Using data from Brar et al, analysis of average gene expression on certain regions of baker's yeast chromosomes during traditional time course meiosis.

Language: Shell - Size: 14.2 MB - Last synced at: 18 days ago - Pushed at: 18 days ago - Stars: 1 - Forks: 0

DiseaseTranscriptomicsLab/markeR

🧬 Toolkit for Evaluating Gene Sets as Phenotype Markers in R

Language: R - Size: 152 MB - Last synced at: 18 days ago - Pushed at: 18 days ago - Stars: 4 - Forks: 0

PavlidisLab/rnaseq-pipeline

RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.

Language: Shell - Size: 43.6 MB - Last synced at: 22 days ago - Pushed at: 22 days ago - Stars: 24 - Forks: 5

nuno-agostinho/cTRAP

Identification of candidate causal perturbations from differential gene expression data

Language: R - Size: 480 MB - Last synced at: 19 days ago - Pushed at: 19 days ago - Stars: 7 - Forks: 1

kieranrcampbell/switchde

Inference of switch-like differential expression along single-cell trajectories

Language: R - Size: 259 KB - Last synced at: 17 days ago - Pushed at: almost 8 years ago - Stars: 21 - Forks: 4

nuno-agostinho/psichomics

Interactive R package to quantify, analyse and visualise alternative splicing

Language: R - Size: 60.8 MB - Last synced at: 19 days ago - Pushed at: 19 days ago - Stars: 37 - Forks: 11

amatov/NeurodegenerationDrugToxicology

Language: R - Size: 2.36 MB - Last synced at: 30 days ago - Pushed at: 30 days ago - Stars: 1 - Forks: 0

adabyt/cancer-subtypes-with-functions

Multiclass classification of breast cancer subtypes using synthetic gene expression data. Refactored code to use a single function for model evaluation across Logistic Regression, Random Forest, and HistGradientBoosting, including metrics and ROC-AUC with Youden’s J statistic.

Language: Python - Size: 2.2 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0

Tom-Jenkins/LobsterGeneX

React web application to visualise lobster gene expression data

Language: JavaScript - Size: 49.9 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0

sdegeorgia/Melanoma_Drug_Resistance_Data

Analysis of gene expression, chromatin accessibility, and resistance phenotypes in melanoma cell lines treated with targeted therapies.

Size: 1000 Bytes - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0

nanxstats/grex

Gene ID Mapping for Genotype-Tissue Expression (GTEx) Data

Language: R - Size: 5.29 MB - Last synced at: 6 days ago - Pushed at: 16 days ago - Stars: 8 - Forks: 2

mojo8787/Comparative_ML_Analysis_Bioinformatics

A comprehensive analysis of gene expression data using machine learning techniques in Python and R, focusing on predictive modeling and data visualization

Language: Python - Size: 1.9 MB - Last synced at: about 19 hours ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 0

Hi-Script/biochemistry_ml_mini_projects

Jupyter Notebook projects analysing ALAS1 gene expression and read counts for bioinformatics.

Language: Jupyter Notebook - Size: 343 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0

clauswilke/pinetree

🌲 a flexible gene expression simulator with codon-specific translation rates

Language: C++ - Size: 3.25 MB - Last synced at: 5 days ago - Pushed at: about 2 months ago - Stars: 12 - Forks: 5

amarinderthind/RNA-seq-tutorial-for-gene-differential-expression-analysis

This RNAseq data analysis tutorial is created for educational purpose

Language: R - Size: 2.58 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 33 - Forks: 13

greenelab/BioBombe

BioBombe: Sequentially compressed gene expression features enhances biological signatures

Language: Jupyter Notebook - Size: 2.28 GB - Last synced at: about 19 hours ago - Pushed at: about 1 year ago - Stars: 66 - Forks: 26

iSEE/iSEE

R/shiny interface for interactive visualization of data in SummarizedExperiment objects

Language: R - Size: 18 MB - Last synced at: about 1 month ago - Pushed at: about 2 months ago - Stars: 228 - Forks: 43

fbrundu/pymrmr

Python3 binding to mRMR Feature Selection algorithm (currently not maintained)

Language: C++ - Size: 208 KB - Last synced at: 18 days ago - Pushed at: 9 months ago - Stars: 141 - Forks: 37

DiseaseTranscriptomicsLab/voyAGEr

⏳ Online graphical interface to explore age-related gene expression alterations in 49 GTEx human tissues

Language: HTML - Size: 1.92 GB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 2 - Forks: 1

aldyforez/promoter-expression-predictor

Predict gene expression levels from DNA promoter sequences using machine learning. Enhance your bioinformatics research with this comprehensive pipeline. 🚀🌱

Size: 7.81 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0

bpucker/MybMonday

MYB transcription factors are one of the largest gene family in plants and control many processes. This repository provides additional background to the #MYB_Monday tweets

Language: Python - Size: 1.54 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 12 - Forks: 1

cemileblks/simple-gene-expression-analysis

Basic R visualisation and analysis of gene expression using heatmaps and boxplots.

Language: R - Size: 251 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0

DivyaKarade/Liver-cancer-gene-expression

Machine learning pipeline for liver cancer classification using gene expression data. Includes preprocessing, PCA, and model evaluation with Random Forest, SVM, XGBoost, and MLP.

Language: Python - Size: 8.19 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0

cemileblks/rna-seq-analysis

RNA-seq analysis of tumour-associated CD8+ T cells in Mus musculus using DESeq2 and GSEA.

Language: R - Size: 9.04 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0

KatrionaGoldmann/volcano3D

An R package to plot interactive three-way differential expression analysis

Language: HTML - Size: 219 MB - Last synced at: 21 days ago - Pushed at: about 2 years ago - Stars: 38 - Forks: 8

danymukesha/BioGA

Optimize high-throughput genomic data analysis using genetic algorithms for efficient pattern discovery and feature selection.

Language: C++ - Size: 13.1 MB - Last synced at: 21 days ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0

skchronicles/RNA-seek

A comprehensive quality-control and quantification RNA-seq pipeline

Language: Python - Size: 10.4 MB - Last synced at: 17 days ago - Pushed at: 17 days ago - Stars: 10 - Forks: 13

ganesan11062001/promoter-expression-predictor

Machine learning pipeline for predicting gene expression levels from DNA promoter sequences using k-mer features and ensemble methods. Built with scikit-learn, includes comprehensive evaluation and visualization tools.

Size: 10.7 KB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0

lucidrains/enformer-pytorch

Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch

Language: Python - Size: 8.76 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 504 - Forks: 92

GfellerLab/EPIC

Repository for the R package EPIC, to Estimate the Proportion of Immune and Cancer cells from bulk gene expression data.

Language: R - Size: 15.9 MB - Last synced at: about 2 months ago - Pushed at: about 2 years ago - Stars: 84 - Forks: 23

catavallejos/BASiCS

BASiCS: Bayesian Analysis of Single-Cell Sequencing Data. This is an unstable experimental version. Please see http://bioconductor.org/packages/BASiCS/ for the official release version

Language: R - Size: 90.4 MB - Last synced at: 8 days ago - Pushed at: 4 months ago - Stars: 84 - Forks: 17

saeyslab/nichenetr

NicheNet: predict active ligand-target links between interacting cells

Language: R - Size: 152 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 550 - Forks: 127

OceaneCsn/DIANE

Dashboard for the Inference and Analysis of Networks from Expression data

Language: R - Size: 106 MB - Last synced at: 1 day ago - Pushed at: over 1 year ago - Stars: 16 - Forks: 4

egaffo/CirComPara

:microscope: A multi-method comparative bioinformatics pipeline to detect and study circRNAs from RNA-seq data

Language: R - Size: 16 MB - Last synced at: about 2 months ago - Pushed at: about 5 years ago - Stars: 16 - Forks: 11

BgeeDB/BgeeCall

Source code of the BgeeCall R package, for automatic RNA-Seq present/absent gene expression calls generation

Language: R - Size: 24.5 MB - Last synced at: 8 days ago - Pushed at: about 2 months ago - Stars: 3 - Forks: 1

gauravrmore007/Gene-Expression-Analysis

A complete single-cell RNA-seq analysis pipeline using Scanpy on 10x Genomics PBMC data, including clustering, UMAP visualization, and marker gene detection.

Language: Python - Size: 0 Bytes - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0

gauravrmore007/Diabetes-Prediction-Using-Gene-Expression-Multi-Omics-

A machine learning project to predict Type 2 Diabetes using high-dimensional gene expression data (microarray), featuring preprocessing, model training, and interpretability.

Language: Jupyter Notebook - Size: 134 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

myles-lewis/glmmSeq

Gene-level general linear mixed model

Language: R - Size: 13.9 MB - Last synced at: about 1 month ago - Pushed at: 8 months ago - Stars: 22 - Forks: 10

alaaj27/DeepVul

DeepVul: A Multi-Task Transformer Model for Joint Prediction of Gene Essentiality and Drug Response

Language: Python - Size: 104 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 0

federicomarini/awesome-expression-browser

😎 A curated list of software and resources for exploring and visualizing (browsing) expression data 😎

Size: 300 KB - Last synced at: 7 days ago - Pushed at: 11 months ago - Stars: 136 - Forks: 38

dhanyashri-g/rheumatoid-arthritis

Bioinformatics analysis of rheumatoid arthritis using GEO datasets to identify DEGs, hub genes, and enriched pathways through PPI network and enrichment analysis.

Size: 10.7 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 0

sanjaynagi/AnoExpress

Anopheles gene expression in insecticide resistance studies

Language: Jupyter Notebook - Size: 82.9 MB - Last synced at: 19 days ago - Pushed at: 5 months ago - Stars: 5 - Forks: 0

mykmal/drab

Identify genes with context-specific patterns of genetic regulation.

Language: R - Size: 113 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 0

dohlee/chromoformer

The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)

Language: Python - Size: 137 MB - Last synced at: 1 day ago - Pushed at: about 2 years ago - Stars: 36 - Forks: 2

COMBINE-lab/salmon

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

Language: C++ - Size: 209 MB - Last synced at: 3 months ago - Pushed at: over 1 year ago - Stars: 809 - Forks: 167

lucidrains/tf-bind-transformer

A repository with exploration into using transformers to predict DNA ↔ transcription factor binding

Language: Python - Size: 408 KB - Last synced at: 16 days ago - Pushed at: over 3 years ago - Stars: 85 - Forks: 9

PavlopoulosLab/Flame

Flame: Functional enrichment analysis using multiple gene lists

Language: R - Size: 13.1 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 9 - Forks: 4

tmichoel/BioFindr.jl

Fast Inference of Biological Networks from Directed Regulations (Findr) in Julia

Language: Julia - Size: 1.83 MB - Last synced at: 19 days ago - Pushed at: 4 months ago - Stars: 1 - Forks: 0

DeplanckeLab/ASAP

ASAP : Automated Single-cell Analysis Pipeline

Size: 170 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 26 - Forks: 10

kullrich/scTEI

scTEI - add any phylogenetically based transcriptome evolutionary index (TEI) to single-cell data objects

Language: HTML - Size: 61.1 MB - Last synced at: 3 months ago - Pushed at: 4 months ago - Stars: 2 - Forks: 0

jdieramon/jdieramon.github.io

Jose V. Die

Language: HTML - Size: 43.7 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 5 - Forks: 0

TomKellyGenetics/graphsim

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

Language: HTML - Size: 35.8 MB - Last synced at: 2 days ago - Pushed at: 4 months ago - Stars: 24 - Forks: 7

saezlab/dorothea

R package to access DoRothEA's regulons

Language: R - Size: 393 MB - Last synced at: 4 months ago - Pushed at: over 1 year ago - Stars: 147 - Forks: 27

federicomarini/GeneTonic

Enjoy your transcriptomic data and analysis responsibly - like sipping a cocktail

Language: R - Size: 121 MB - Last synced at: 8 days ago - Pushed at: 4 months ago - Stars: 78 - Forks: 11

jhudsl/GDSCN_Book_Statistics_for_Genomics_Differential_Expression

A set of lab modules for an introduction to differential gene expression

Language: CSS - Size: 10.3 MB - Last synced at: about 17 hours ago - Pushed at: 5 days ago - Stars: 0 - Forks: 1

soulj/SkeletalVis

R package for visualisation and data mining of skeletal transcriptomics data

Language: JavaScript - Size: 3.86 MB - Last synced at: 20 days ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

anthonysnead/Plastic-Gene-Rivulus

Language: HTML - Size: 6.24 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

NIGMS/Consensus-Pathway-Analysis-in-the-Cloud

Consensus pathway analysis module developed by the University of Nevada at Reno

Language: HTML - Size: 54.1 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 2 - Forks: 3

Se00n00/GeneExpressionLevelPrediction

This project implements a Transformer-based architecture from the ground up, including custom attention layers, encoders, decoders, and XAI (Explainable AI) components. Designed for learning, experimentation, and transparency for predicting gene expression levels

Language: Jupyter Notebook - Size: 1.38 MB - Last synced at: 2 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

thelovelab/fishpond

Differential expression and allelic analysis, nonparametric statistics

Language: R - Size: 7.89 MB - Last synced at: 19 days ago - Pushed at: 8 months ago - Stars: 29 - Forks: 10

greenelab/tybalt

Training and evaluating a variational autoencoder for pan-cancer gene expression data

Language: HTML - Size: 99.3 MB - Last synced at: 4 months ago - Pushed at: over 6 years ago - Stars: 169 - Forks: 62

SlavovLab/Protein-Clearance

Analysis from Leduc and Slavov (2025): Protein degradation and growth dependent dilution substantially shape mammalian proteomes

Language: R - Size: 35.2 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

gaolabtools/scNanoGPS

Single cell Nanopore sequencing data for Genotype and Phenotype

Language: Python - Size: 27 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 51 - Forks: 5

greenelab/RNAseq_titration_results

Cross-platform normalization enables machine learning model training on microarray and RNA-seq data simultaneously

Language: HTML - Size: 3.35 MB - Last synced at: 4 months ago - Pushed at: over 2 years ago - Stars: 36 - Forks: 17

MusaibNagani/Single-Cell-RNA-Sequencing

This project explores single-cell RNA sequencing (scRNA-seq) data using advanced machine learning techniques. By applying dimensionality reduction and graph-based models, we analyze high-dimensional scRNA-seq data to uncover cellular heterogeneity and reveal underlying biological processes at the single-cell level.

Language: Python - Size: 35.1 MB - Last synced at: 5 months ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0

pinellolab/haystack_bio

Haystack: Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline

Language: HTML - Size: 1.18 GB - Last synced at: about 2 months ago - Pushed at: about 3 years ago - Stars: 47 - Forks: 11

BgeeDB/bgee_apps

Source code of the Java Bgee applications

Language: Java - Size: 178 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 2 - Forks: 1

swvanderlaan/QTLToolKit

A workflow based on QTLtools to run cis- and trans-QTL analyses.

Language: Shell - Size: 37.2 MB - Last synced at: 6 days ago - Pushed at: 10 months ago - Stars: 7 - Forks: 6

Nonilas/Bioinformatics-2024-Projects

MATLAB Bioinformatics assignments covering sequence alignment, gene expression analysis, PCA, phylogenetics, and metabolomics.

Size: 27.5 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 1 - Forks: 0

AmmarRashed/Genobolitics

A bioinformatics tool that integrates gene expression data with metabolic models for pathway-level disease analysis. Extends Metabolitics for more comprehensive systems biology analysis.

Language: Jupyter Notebook - Size: 558 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 1 - Forks: 1

climatechangemicrobiology/ProGRN

Prokaryote Gene Regulatory Network (ProGRN) Inference Pipeline

Language: HTML - Size: 238 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 1 - Forks: 0

kmertide/CellLayers 📦

Uncovering structure in unsupervised single cell analysis.

Language: Jupyter Notebook - Size: 390 MB - Last synced at: about 1 month ago - Pushed at: 6 months ago - Stars: 3 - Forks: 0

greenelab/hgsc_subtypes

Two or three subtypes of high grade serous ovarian cancer subtypes fit data from different populations better than four

Language: R - Size: 101 MB - Last synced at: 4 months ago - Pushed at: almost 7 years ago - Stars: 12 - Forks: 10

greenelab/PathCORE-T-analysis

This repository is in support of the PathCORE-T paper (https://doi.org/10.1101/147645). It contains all the code and necessary data/metadata to repeat all analyses in the paper.

Language: Jupyter Notebook - Size: 136 MB - Last synced at: 4 months ago - Pushed at: over 7 years ago - Stars: 8 - Forks: 2

agnflame/PowerLaw

Data and code for the paper 'Transient power-law behaviour following induction distinguishes between competing models of stochastic gene expression'.

Language: Jupyter Notebook - Size: 675 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0

JEFworks-Lab/MERINGUE

characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular densities

Language: R - Size: 89.8 MB - Last synced at: 5 months ago - Pushed at: over 3 years ago - Stars: 69 - Forks: 5

greenelab/pancancer

Building classifiers using cancer transcriptomes across 33 different cancer-types

Language: Jupyter Notebook - Size: 28.8 MB - Last synced at: 4 months ago - Pushed at: over 6 years ago - Stars: 119 - Forks: 58

greenelab/pancancer-evaluation

Evaluating genome-wide prediction of driver mutations using pan-cancer data

Language: Jupyter Notebook - Size: 86.6 MB - Last synced at: 4 months ago - Pushed at: 11 months ago - Stars: 8 - Forks: 1

andreas-pattichis/ML-for-RNA-Seq-Disease-Classification-and-Biomarker-Discovery

This project develops a machine learning model to classify individuals as healthy, having rheumatoid arthritis (RA), or systemic lupus erythematosus (SLE) using RNA-Seq gene expression data. The project also identifies significant genes as potential biomarkers, leveraging SGDClassifier and XGBoost models.

Language: Jupyter Notebook - Size: 2.27 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 1 - Forks: 0

ali-Eskandarian/Semester_1_Evolutionary_Algorithms

Projects of EA course - utilizing Genetic Models from basic ones to most advanced

Language: Python - Size: 2.62 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0

almeidasilvaf/HybridExpress

An R package for comparative transcriptomic analyses of hybrids and their progenitors

Language: R - Size: 19.2 MB - Last synced at: 8 days ago - Pushed at: about 1 year ago - Stars: 14 - Forks: 3