112 Open source projects that are alternatives of or similar to cruk-summer-school-2018

Reproducible reanalysis of a combined ChIP-Seq & RNA-Seq data set

Haystack: Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline

Multi-omics analysis protocols by Lyu.

A graphical user interface for distributed data processing of high throughput genomics

CWL tools and workflows for GGR

Scripts to import your FeatureCounts output into DEXSeq

This lab is designed to be an adjunct to learning Elm. Go from the most basic "Hello World" through data types and more advanced features in this example.

An automated RNA-seq pipeline using Nextflow

A course on Analysing Next Generation (/High Throughput etc..) Sequencing data using Bioconductor

No description or website provided.

PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data

An introduction to Clojure, for programmers who are new to Clojure.

Create a cromphensive report of DEG list coming from any analysis of RNAseq data

Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data

Python3 teaching materials for basic introduction to Python (2 days)

🐍 Snakefiles for common RNA-seq data analysis workflows.

📊 Graphical User Interface for TCC package

GREIN : GEO RNA-seq Experiments Interactive Navigator

Examples and demos on the training Angular Fundamentals (by Peter Kassenaar)

Bioinformatics library in Kotlin

No description or website provided.

Presentations, training modules, and other education materials from Duo Security's Application Security team.

No description or website provided.

Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.

Digital Expression Explorer 2 (DEE2): a repository of uniformly processed RNA-seq data

Processing of single cell RNAseq data for the recovery of TCRs in python

CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology

A tool to identify, orient, trim and rescue full length cDNA reads

Fast and accurate gene fusion detection from RNA-Seq data

An online companion to the OSCA manuscript demonstrating Bioconductor resources and workflows for single-cell RNA-seq analysis.

A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.

Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders

Single cell analysis in the browser

A pipeline for the computational evaluation of RNA-Seq data

Lightweight and Fast; RNA-seq quantification at the event-level

🚦 Run Picard on BAM files and collate 90 metrics into one file.

Deep Learning based cell composition analysis with Scaden.

MAnorm2 for Normalizing and Comparing ChIP-seq Samples

A versatile sequenced read processor for nanopore direct RNA sequencing

kallisto | bustools workflow for pre-processing single-cell RNA-seq data

Fast in-silico normalization algorithm for NGS data

Python3 teaching materials for functions and modules (1 day)

Next-Gen Sequencing tools from the Horvath Lab

A proof of concept RNA-Seq pipeline with Nextflow

Version 2.1.0 released

Workshop and training materials

TransPi – a comprehensive TRanscriptome ANalysiS PIpeline for de novo transcriptome assembly

CellNet: network biology applied to stem cell engineering

Pipeline for annotating genomes using long read transcriptomics data with pinfish

RNASeq pipeline

Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing

Dynamical systems methods for RNA velocity analysis

Differential Gene Correlation Analysis

Pileup biallelic SNPs from single-cell and bulk RNA-seq data

Learn Kubernetes fundamentals / Formation Kubernetes et les micro-services

Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.

Reference-based transcript discovery from long RNA read

Automated generation of tailored bioinformatics Jupyter Notebooks via a user interface.

Find documentation and a template project for delivering Kedro training.

CoNekT (short for Co-expression Network Toolkit) is a platform to browse co-expression data and enable cross-species comparisons.