Bioinformatics with Python Tutorial!! | Base Call

Python for Biologists: A complete programming course for beginners - https://amzn.to/3hzwpii

Kaggle - https://www.kaggle.com/learn
Keith Galli -    / @keithgalli  
Illumina on NGS -    • Overview of Illumina Sequencing by Sy...  

IGV download -https://software.broadinstitute.org/s...

VSCode - https://code.visualstudio.com/download

Download cram file - wget -O NA12878.cram ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/data_collections/1000_genomes_project/data/CEU/NA12878/alignment/NA12878.alt_bwamem_GRCh38DH.20150718.CEU.low_coverage.cram

Download GRCH38 -https://www.ncbi.nlm.nih.gov/assembly...

NA12878.cram - https://biology.stackexchange.com/que...

Install HomeBrew - https://brew.sh/

PySam Documentation - https://pysam.readthedocs.io/en/latest/

Seaborn - https://seaborn.pydata.org/

StackOverflow - https://stackoverflow.com/

TimeStamps
00:00 - Welcome!
02:25 - Get this book!
03:15 - What Equipment Do You Need
06:21 - Introduction to installing software
08:04 - How To Install Anaconda/Bioconda
11:46 - How To Install HomeBrew on Mac
12:12 - How To Install SamTools
13:34 - How To Download and Setup VSCode
15:22 - How To Make a Virtual Environment in VSCode
20:06 - How To Use Jupyter Notebook in VSCode
23:32 - How To Install IGV
27:43 - Download the data
27:52 - How to download wget with Homebrew
30:06 - How to download the human reference genome