ngs-docs/snakemake-vidlets

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ngs-docs/snakemake-vidlets

ngs-docs

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repository to build, host, discuss, and improve snakemake video lessons

angus

Materials for Analyzing Next-Generation Sequencing (ANGUS) course.

2017-ucsc-metagenomics

Workshop materials for shotgun metagenomics

Jupyter Notebook

2017-cicese-metagenomics

Jupyter Notebook

2015-nov-adv-rna

2023-snakemake-book-draft

A DRAFT, early stage book on snakemake.

2017-dsi-docker-may

2016-bids-docker

2015-nov-docker

Materials for http://dib-training.readthedocs.org/en/pub/2015-11-09-docker.html

2018-cicese-metatranscriptomics

repo for cicese metatranscriptomics workshop, nov 2018

2021-GGG298

Winter 2021, GGG 298 - Tools for Data Intensive Research - UC Davis

ngs-scripts

2016-adv-begin-shell-genomics

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

2020-GGG298

2013-davis-assembly

2016-metagenomics-sio

Metagenomics workshop at Scripps Institute of Oceanography

2020-GGG201b-lab

Materials from Intro to Bioinformatics lab, Winter offering at UC Davis (Jan-Mar 2020)

2018-ggg201b

Class resources for Intro to Genetics and Genomics 201b at UC Davis, 2018 version

Jupyter Notebook

2015-python-intro

ggg-shell-genomics-ws

Data for the first few shell genomics workshop lessons from Data Carpentry

2020-ggg-201b-variant-calling

2017-dibsi-metagenomics

2017 DIBSI Metagenomics Workshop

Jupyter Notebook

2018-ggg-rstudio-bioinformatics-ws

2020-ggg-201b-rnaseq

2022-GGG298

Winter 2022 - Tools for Data Intensive Research at UC Davis.

2023-june-datalab-collaboratory

Workshop schedule & ancillary information for June 2023 DataLab Collaboratory

2021-GGG201b-lab

Winter 2021, GGG 201(b) lab course - UC Davis.

2021-august-remote-computing

Remote computing workshops in August 2021

2023-GGG298

Class materials for GGG 298, Tools for Data Intensive Research, WQ 2023 UC Davis.

2017-dibsi-rnaseq

Jupyter Notebook

dibsi-online

Materials for running the Data Intensive Biology Summer Institute online, in 2020. Because #coronavirus!!

2017-mbl-stamps

2015-may-nonmodel

Workshop materials for dib-training.readthedocs.org/en/pub/2015-05-04-mRNAseq-nonmodel.html

remote-computing-base

An Introduction to Remote Computing - base materials.

2015-oct-nonmodel

Workshop materials for http://dib-training.readthedocs.org/en/pub/2015-10-26-mRNA-denovo.html

2022-GGG201b-lab

GGG 201(b), Intro to Bioinformatics - lab section. Winter 2022 at UC Davis.

Jupyter Notebook

2015-nov-jupyter

2016-adv-begin-python

See https://dib-training.readthedocs.org/en/pub/2016-04-04-adv-beg-python.html

2024-GGG298

Class materials for GGG 298, Tools for Data Intensive Research, WQ 2024 @ UC Davis.

ucdavis

Organizing things for UC Davis workshops, generally speaking.

shared-conda-on-farm

Scripts and config for setting up a shared conda package space on farm.cse.ucdavis.edu

2019-ggg201b

Intro to Genetics and Genomics at UC Davis, 2019 version

sqer-demo

2017-davis-ggg201a-day2

These lessons are adapted from Data Carpentry: R for data analysis and visualization of Ecological Data

2021-ggg-201b-lab-hw1

2014-msu-rnaseq

2013-norwich-bioinfo

2013 advanced bioinformatics workshop at Norwich

2015-sep-microbial

2019-ggg-201a-rnaseq-oneday

A short ~1 hour RNAseq introduction, using yeast data and salmon.

2016-aug-nonmodel-rnaseq

2021-remote-computing-snakemake

2016-feb-aws

2023-ggg298-sourmash-compare

A simple example snakemake workflow

Jupyter Notebook

2017-cloud-workflows-misc

2018-ggg-rstudio-bioinformatics-ws-materials

2024-ggg-201b-variant-calling

2024-ggg-201b-lab

2023-rnaseq

2024-ggg-201b-rnaseq

RNAseq stuff for 201b

2024-pig-paradigm-workshop