Stars
Single cell RNA sequencing analysis course
Finder of Somatic Fusion Genes in RNA-seq data
Applied Computational Genomics Course at UU: Spring 2020
Web scraping to get articles for a given query. It returns an spreadsheet with titles, abstracts, doi and references of the article
A curated list of awesome pipeline toolkits inspired by Awesome Sysadmin
Omics BioAnalytics - RShiny web app for bioinformatics analyses
Google Chrome, Firefox, and Thunderbird extension that lets you write email in Markdown and render it before sending.
RNAseq analysis notes from Ming Tang
A collection of awesome markdown goodies (libraries, services, editors, tools, cheatsheets, etc.)
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
Little code snippets that do (hopefully) useful things
Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"
This is a demo about how to develop and deploy a pipeline using nextflow, scif, a container (Singularity and Docker) and its posterior deployment.
A proof of concept RNA-Seq pipeline with Nextflow
A curated list of nextflow based pipelines
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Nextflow Workshop at Rocky Mountain Genomics HackCon 2018
An implementation of a complete machine learning solution in Python on a real-world dataset. This project is meant to demonstrate how all the steps of a machine learning pipeline come together to s…
RNA structure probing and post-transcriptional modifications mapping high-throughput data analysis
Mitigating the adverse impact of batch effects in sample pattern detection
Python Data Science Handbook: full text in Jupyter Notebooks
ANNOgesic - A Swiss army knife for the RNA-Seq based annotation of bacterial/archaeal genomes
A package for predicting Rho independent terminators in bacterial genomes
Copies of notebooks used in the practical sessions for Algorithms for DNA Sequencing
Fast genome-wide functional annotation through orthology assignment