Scripts to reproduce the results from "GuiltyTargets: Prioritization of Novel Therapeutic Targets with Deep Network Representation Learning"

Project to load external data sets into the Reactome-IDG portal

Free R-Tips is a FREE Newsletter provided by Business Science. It comes with bite-sized code tutorials every week.

Create beautiful Gantt charts with ggplot2

Mondo Disease Ontology

Scripts related to bulkRNA-seq as well as single-cell CITE-seq and VDJ-seq data of Gearty et al. (2021)

Clone of the Bioconductor repository for the SingleR package.

An overview of algorithms for estimating pseudotime in single-cell RNA-seq data

Convenient, high-level functions for EZ(-er) scRNA-seq analysis

Original Apollo 11 Guidance Computer (AGC) source code for the command and lunar modules.

Some thoughts on choosing an appropriate pseudo-count for log-transformation of scRNA-seq counts.

Panoramic stitching of single cell data

Clone of the Bioconductor repository for the zinbwave package, see https://bioconductor.org/packages/zinbwave

ATAC-seq Quality Control

ATAC_seq Workshop

Clone of the Bioconductor repository for the scater package.

A script to convert Wordpress XML dump to markdown files

The Composer of ggplots

Tools for the Differential Analysis of Proteins Abundance with R

Flight rules for git

MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological datasets.

Tutorials, workflows, and convenience scripts for Single Cell Portal

fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome

Mouse / human control of cross-contaminations in single-cell ATAC-seq on Fluidigm C1

Organize, share and stream large size local genomic data securely

A docker tutorial for reproducible research

Quality of RNA-Seq Toolset

Official repository for IPython itself. Other repos in the IPython organization contain things like the website, documentation builds, etc.