metamaden

openai-cookbook

Examples and guides for using the OpenAI API

Svelvet

🎛 A Svelte library for building dynamic, infinitely customizable node-based user interfaces and flowcharts

GEM

awesome-multi-omics

List of software packages for multi-omics analysis

containers

Bioinformatics containers

sctransform

R package for modeling single cell UMI expression data using regularized negative binomial regression

sc_mixology

This contains the dataset for comparing scRNA-seq analysis methods

flowdec

TensorFlow Deconvolution for Microscopy Data

extreme-deconvolution

Density estimation using Gaussian mixtures in the presence of noisy, heterogeneous and incomplete data

voyager

From geospatial to spatial -omics

CIDR

Clustering through Imputation and Dimensionality Reduction

NSForest

A machine learning method for the discovery of the minimum marker gene combinations for cell type identification from single-cell RNA sequencing

steinbock

A toolkit for processing multiplexed tissue images

DropletQC

Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data

CellProfileLibrary

MTG_celltypes

Human cortical cell types

RADs

hello

Classic hello world script in Nextflow language

SimBu

Simulate pseudo-bulk RNAseq samples from scRNAseq expression data

DSA

Digital Sorting Algorithm

SPEAQeasy

SPEAQeasy: portable LIBD RNA-seq pipeline using Nextflow. Check http://research.libd.org/SPEAQeasy-example/ for an example on how to use this pipeline and analyze the resulting output files.

DLPFC_snRNAseq

snRNA_seq portion of the spatialDLPFC project

quantify-snrna

bioc_team_ds

R/Bioconductor-powered Team Data Science by Leonardo Collado Torres

bluster

Clone of the Bioconductor repository for the bluster package.

nf-benchmark

NF-RNAseq

A-Geometric-Perspective-on-the-Power-of-Principal-Component-Association-Tests-in-Multiple-Phenotype-

A Geometric Perspective on the Power of Principal Component Association Tests in Multiple Phenotype Studies, by Zhonghua Liu & Xihong Lin

Strategies-for-cellular-deconvolution-in-human-brain-RNA-sequencing-data

intronomer

Tool for calculating intron persistence, as defined in https://doi.org/10.1186/s13059-022-02789-6