reachsagaya

A.thaliana_CLR_vs_HiFi

alignment-and-variant-calling-tutorial

basic walk-throughs for alignment and variant calling from NGS sequencing data

applied-computational-genomics

Applied Computational Genomics Course at UU: Spring 2018

appliedgenomics2018

Materials for Spring 2018 Applied Genomics Course

assemblyqc

A Nextflow pipeline for evaluating assembly quality

biotools

A list of useful bioinformatics resources

SV_Benchmark_CMRG

Structural variant benchmark of challenging medically relevant genes

reachsagaya/SV_Benchmark_CMRG

Structural variant benchmark of challenging medically relevant genes

reachsagaya/A.thaliana_CLR_vs_HiFi

reachsagaya/alignment-and-variant-calling-tutorial

basic walk-throughs for alignment and variant calling from NGS sequencing data

reachsagaya/assemblyqc

A Nextflow pipeline for evaluating assembly quality

reachsagaya/awk-sed

reachsagaya/bioinformatics-one-liners

Bioinformatics one liners from Ming Tang

reachsagaya/bovine-graphs

Integrate multiple genome assemblies into a pangenome graph

reachsagaya/CNVpytor

a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads

reachsagaya/Code_Ae_tauschiiDiversity

Code and scripts for Ae. tauschii diversity analysis

reachsagaya/Data-Science--Cheat-Sheet

Cheat Sheets

reachsagaya/FriendsDontLetFriends

Friends don't let friends make certain types of data visualization - What are they and why are they bad.

reachsagaya/genepal

A Nextflow pipeline for genome and pan-genome annotation

reachsagaya/hgsvc

building variation graphs from hgsvc data

reachsagaya/jasen

Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.

reachsagaya/nano_diagnositcs

Documentation of analyses and commands used as part of the PhD project investigating next generation diagnostics

reachsagaya/pbbioconda

PacBio Secondary Analysis Tools on Bioconda

reachsagaya/PlantsAndPython

reachsagaya/Probabilistic-Programming-and-Bayesian-Methods-for-Hackers

aka "Bayesian Methods for Hackers": An introduction to Bayesian methods + probabilistic programming with a computation/understanding-first, mathematics-second point of view. All in pure Python ;)

reachsagaya/python-data-analysis_JulinM

reachsagaya/Python-for-Bioinformatics

Python for Bioinformatics consist of a variety of python programmes,frequently used by bioinformaticians while handling biological data especially raw NGS data.

reachsagaya/PythonForBioinformatics

This repository will be helpful to start using python for your Bioinformatics projects.

reachsagaya/R-for-Plant-Breeding

R for Plant Breeding is open source resource to lear the Plant Breeding and Genetics related data analysis and visualizations

reachsagaya/RethinkingV2_Julin.Maloof

Repository for Statistical Rethinking V2 from Julin.Maloof

reachsagaya/sagaya.github.io

reachsagaya/snakepipes

Customizable workflows based on snakemake and python for the analysis of NGS data

reachsagaya/stat_rethinking_2022

Statistical Rethinking course winter 2022

reachsagaya/sv-genotyping-paper

reachsagaya/sv-pipeline

Pipeline for structural variation detection in cohorts

reachsagaya/SVHack_assemblyvmapping

reachsagaya/vg

tools for working with genome variation graphs