Publication Page for ArchR Manuscript 2020

Scripts to recreate figures from the scfind paper

Tabula Muris Senis

🦠 Regularly updated list of publicly available datasets with single-cell (scRNAseq) and T-cell/antibody immune repertoire (AIRR / RepSeq / immunosequencing) data of COVID-19 patients with SARS-CoV-2.

Single RNA-seq data analysis with R (Finland, May, 2019)

scRNAseq analysis notes from Ming Tang

SingleR: Single-cell RNA-seq cell types Recognition (legacy version)

Software Package for Transcription Factor Binding Site (TFBS) Analysis

metaDEGth: meta-analysis of Differentially Expressed Genes using parametric, empirically-derived P-value distributions

Pipeline for high-throughput analysis of RFP/GFP ratios in vacuoles

Mair and Erickson, A targeted multi-omic analysis approach measures protein expression and low abundance transcripts on the single cell level

This repository contains HCA Benchmarking codes

A research compendium: Transcriptional regulation of autophagy during adipocyte differentiation

MaSIF- Molecular surface interaction fingerprints. Geometric deep learning to decipher patterns in molecular surfaces.

Identification and structural characterization of transcription factors based on supervised machine learning

All software used for “Decoding human fetal liver haematopoiesis” (Popescu, Botting, Stephenson et al., 2019).

Simple and fast GO enrichment tool with functional clustering

R toolkit for single cell genomics

CellNet: network biology applied to stem cell engineering

Introduction to R - first steps: expressions, functions and data

This repository contains the code used to benchmark TF-target datasets via TF activities in 3 benchmark datasets

Table of software for the analysis of single-cell RNA-seq data.

a small collection for my R scripts

Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.