kyounghyoun Goto Github PK

150826_pathway_analysis

2015ngsintro

2015 NGS course and slides

2016-adv-begin-shell-genomics

Workshop content for http://dib-training.readthedocs.org/en/pub/2016-01-13-adv-beg-shell.html

2022_kogo_workshop

adv-r

Advanced R programming: a book

analysis-projects-r

applied-computational-genomics

Applied Computational Genomics Course at UU: Spring 2017

bioconda-recipes

Conda recipes for the bioconda channel.

bioinf-python

Python for Bioinformatics

bioinformatics-one-liners

my collection of bioinformatics one liners that is useful in my day-to-day work

biom262-2016

Code and notebooks for BIOM262

biostar-tutorials

Code for biostar tutorials - mostly R and Perl

bismark

A tool to map bisulfite converted sequence reads and determine cytosine methylation states

bismarkmultimappinglocations

This is a side-project of Bismark whose aim is to output multiply mapping read positions without any of the methylation specific features.

cactus

Official home of genome aligner based upon notion of Cactus graphs

canu

A single molecule sequence assembler for genomes large and small.

chicken

chip-seq-analysis

ChIP-seq analysis notes from Tommy Tang

cnvkit

Copy number variant detection from targeted DNA sequencing

common_analyses

Repository of common bioinformatics scripts

common_scripts

my bin directory

correlation-between-rna-seq-and-rrbs

data-science-at-the-command-line

Data Science at the Command Line

data-science-teaching

Teaching data science

deeplearningzerotoall

TensorFlow Basic Tutorial Labs

deepslide

Code for the Nature Scientific Reports paper "Pathologist-level classification of histologic patterns on resected lung adenocarcinoma slides with deep neural networks." A sliding window framework for classification of high resolution whole-slide images, often microscopy or histopathology images.

diamond

Accelerated BLAST compatible local sequence aligner.

dive-into-machine-learning

Free ways to dive into machine learning with Python and Jupyter Notebook. Notebooks, courses, and other links. (First posted in 2016.)

dna-methylation-analysis

my notes on DNA methylation analysis (arrays and sequencing data)

dna-seq-analysis

my notes on whole exome and whole genome sequencing analysis