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epurate

A clean R Markdown template for your reports

evachan.org-rscripts

Handy genetics-related R scripts

evogen_course

Material for Evolutionary Genomics course - data analysis module

faceswap

Non official project based on original /r/Deepfakes thread. Many thanks to him!

fasta_utilities

A collection of scripts developed to interact with fasta, fastq and sam/bam files.

fibernetwork

WGCNA analysis using Fiber RNA seq data

fibertranscriptomemapping

a shell script that can be used to re-create all the mapping data for the FiberTranscriptome Project

find-inversions

Find inversions in the genome using high-density SNP data of multiple populations

gatk_pipeline

GATK Pipeline: Recalibrates mapping qualities and calls variants using GATK

gatk_recalibrate_and_realign

GATK Indel Realignment and Quality Recalibration: Deduplicates, realigns, and recalibrates a Mappings object in order to improve the quality of downstream variant calls, per the GATK best practices in variant detection.

gatk_unifiedgenotyper

GATK UnifiedGenotyper: Calls SNP and indel variations using GATK's UnifiedGenotyper.

gbrowse

gcc-bosc-2018

Lessons for "Setting up for Success when planning an RNA-seq experiment" session at GCC-BOSC 2018

genmap-comparator

An application to compare genetic maps with D3 & Shiny

genome

Core modules used by the GMS

genvisr

Genome data visualizations

geo

ggplot2-tutorial

Teaching materials for the R package ggplot2

google-scholar-network

Using R to study the co-author relationship of researchers

googlevis

Interface between R and the Google Chart Tools

gsp

A tool for Genome Specific Primers design in polyploid species

hisat2

Graph-based alignment (Hierarchical Graph FM index)

in-depth-ngs-data-analysis-course

Materials for 12-day course on analyzing RNA-Seq, ChIP-Seq and variant calling data.

intro-to-chipseq

Intro to ChIPseq using HPC

intro-to-rnaseq-hpc-gt

Introduction to RNA-seq using HPC

intro-to-rnaseq-hpc-orchestra

This repository has teaching materials for a 2-day Introduction to RNA-sequencing data analysis workshop using the Orchestra Cluster.

intro-to-rnaseq-hpc-salmon

intro-to-shell

Introduction to the Unix shell

intro-to-unix-qmb

Workshop for Intro to Unix

irap

integrated RNA-seq Analysis Pipeline