seandavi/awesome-single-cell

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

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federicomarini/awesome-expression-browser

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

Size: 300 KB - Last synced: 9 days ago - Pushed: about 1 month ago - Stars: 124 - Forks: 37

WojciechMigda/TCO-CMap2

CMap2 Top Coder Data Science Marathon Match

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DEIB-GECO/GIS-weigthed_LASSO

Integrative approach to feature selection combining weighted LASSO and prior biological knowldge

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MarieOestreich/PRO-GENE-GEN

This repository contains the implementation for "Towards Biologically Plausible and Private Gene Expression Data Generation" (accepted at PoPETs 2024)

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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.

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cashoes/sear

Simple (effin') Enrichment Analysis in R

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tlatkowski/deep-learning-gene-expression

Deep learning methods for feature selection in gene expression autism data.

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kullrich/orthomap 📦

orthomap is a python package to extract orthologous maps (in other words the evolutionary age of a given orthologous group) from OrthoFinder/eggNOG results. Orthomap results (gene ages per orthogroup) can be further used to calculate weigthed expression data (transcriptome evolutionary index) from scRNA sequencing objects.

Language: Python - Size: 59.1 MB - Last synced: 1 day ago - Pushed: 6 months ago - Stars: 6 - Forks: 1

cashoes/enumerateblood

A multi-response Gaussian model capable of accurately estimating the composition of blood samples from their gene expression profiles. Fit on Affymetrix Gene ST gene expression profiles using the glmnet R package.

Language: R - Size: 3.22 MB - Last synced: 7 months ago - Pushed: almost 7 years ago - Stars: 1 - Forks: 3

novasmedley/deepRadiogenomics

Methods for training and interpreting deep radiogenomic neural networks

Language: Python - Size: 3.21 MB - Last synced: 8 months ago - Pushed: about 4 years ago - Stars: 11 - Forks: 3

RRafiee/GeneExpressionClassification

NanoString classifier based on NGS training set

Language: R - Size: 75.2 KB - Last synced: 8 months ago - Pushed: about 7 years ago - Stars: 0 - Forks: 1

tbrunetti/NMF_unsupervised_clustering

Non-Negative Matrix Factorization for Gene Expression Clustering

Language: Python - Size: 133 MB - Last synced: 6 months ago - Pushed: about 6 years ago - Stars: 6 - Forks: 2

rajewsky-lab/SPACEGERM 📦

SPACEGERM shiny app (archived, see GitLab for active fork)

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tagtag/TDbasedUFE

This is a R package that intends to perform all the features possible by tensor decomposition based unsupervised feature extraction

Language: R - Size: 2.01 MB - Last synced: 6 months ago - Pushed: about 1 year ago - Stars: 5 - Forks: 0

biomedbigdata/keypathwayminer-R

R package for de novo pathway enrichment using KeyPathwayMiner

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kullrich/scTEI

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

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Arshammik/Bioinformatics

Courses, projects and challenges in bioinformatics,

Language: Python - Size: 14.7 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago - Stars: 3 - Forks: 0

krishan57gupta/iCTC

The goal of iCTC is to detect whether peripheral blood cells have CTCs (circulating tumor cell) or not.

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maclean-lab/RVAgene

Recurrent Variational Auto gene encoder

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krishan57gupta/ROSeq

ROSeq - A rank based approach to modeling gene expression with filtered and normalized read count matrix. Takes in the complete filtered and normalized read count matrix, the location of the two sub-populations and the number of cores to be used.

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CoXPath/CoXPath

Scripts and data from "Towards a global investigation of transcriptomic signatures through co-expression networks and pathway knowledge for the identification of disease mechanisms"

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EliasFarr/SPOT

SPOT - Swift Profiling Of Transcriptomes - a shiny app for gene ranking according to user-defined expression profiles

Language: R - Size: 19.1 MB - Last synced: about 1 year ago - Pushed: about 3 years ago - Stars: 0 - Forks: 2

DEIB-GECO/GeneNetFusion

Language: Jupyter Notebook - Size: 252 MB - Last synced: about 2 months ago - Pushed: over 1 year ago - Stars: 1 - Forks: 4

krishan57gupta/ORsurv

survival of patients using ors on TCGA data

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sk-sahu/EcoGEx

Arabidopsis EcoGEx (R-📦 + 🕸️-App)

Language: R - Size: 25.5 MB - Last synced: about 1 year ago - Pushed: about 4 years ago - Stars: 1 - Forks: 1

JDRomano2/gexpro

A library and toolkit for common representation and analysis of gene expression profile data

Language: C++ - Size: 11.2 MB - Last synced: 7 months ago - Pushed: about 6 years ago - Stars: 0 - Forks: 0