Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
-
Updated
Mar 27, 2024
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
😎 A curated list of software and resources for exploring and visualizing (browsing) expression data 😎
Deep learning methods for feature selection in gene expression autism data.
Recurrent Variational Auto gene encoder
Scripts and data from "Towards a global investigation of transcriptomic signatures through co-expression networks and pathway knowledge for the identification of disease mechanisms"
Methods for training and interpreting deep radiogenomic neural networks
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.
Non-Negative Matrix Factorization for Gene Expression Clustering
SPOT - Swift Profiling Of Transcriptomes - a shiny app for gene ranking according to user-defined expression profiles
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.
NanoString classifier based on NGS training set
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.
R package for de novo pathway enrichment using KeyPathwayMiner
Arabidopsis EcoGEx (R-📦 + 🕸️-App)
This is a R package that intends to perform all the features possible by tensor decomposition based unsupervised feature extraction
SPACEGERM shiny app (archived, see GitLab for active fork)
CMap2 Top Coder Data Science Marathon Match
survival of patients using ors on TCGA data
Shared TREM-1 expression signatures of asthma affection and control
Add a description, image, and links to the gene-expression-profiles topic page so that developers can more easily learn about it.
To associate your repository with the gene-expression-profiles topic, visit your repo's landing page and select "manage topics."