igv.js

Deployment on macOS

Get igv source

cd ~/Sites
https://github.com/slw287r/igv.git

Prepare refGene and reference (GRCh37/hg19)

% tree ~/Sites/igv/resources/data 
~/Sites/igv/resources/data 
├── cytoBand.txt
├── hg19.fasta
├── hg19.fasta.fai
├── refGene.sorted.txt.gz
╰── refGene.sorted.txt.gz.tbi

File	URL
fasta	https://s3.dualstack.us-east-1.amazonaws.com/igv.broadinstitute.org/genomes/seq/hg19/hg19.fasta
index	https://s3.dualstack.us-east-1.amazonaws.com/igv.broadinstitute.org/genomes/seq/hg19/hg19.fasta.fai
cytoband	https://s3.dualstack.us-east-1.amazonaws.com/igv.broadinstitute.org/genomes/seq/hg19/cytoBand.txt
refGene	https://s3.dualstack.us-east-1.amazonaws.com/igv.org.genomes/hg19/refGene.sorted.txt.gz
index	https://s3.dualstack.us-east-1.amazonaws.com/igv.org.genomes/hg19/refGene.sorted.txt.gz.tbi

mkdir -p ~/Sites/igv/resources/data && cd ~/Sites/igv/resources/data
wget https://s3.dualstack.us-east-1.amazonaws.com/igv.broadinstitute.org/genomes/seq/hg19/hg19.fasta
wget https://s3.dualstack.us-east-1.amazonaws.com/igv.broadinstitute.org/genomes/seq/hg19/hg19.fasta.fai
wget https://s3.dualstack.us-east-1.amazonaws.com/igv.broadinstitute.org/genomes/seq/hg19/cytoBand.txt
wget https://s3.dualstack.us-east-1.amazonaws.com/igv.org.genomes/hg19/refGene.sorted.txt.gz
wget https://s3.dualstack.us-east-1.amazonaws.com/igv.org.genomes/hg19/refGene.sorted.txt.gz.tbi

Build local server on macOS

Refer to the following link to turn on apache server

https://websitebeaver.com/set-up-localhost-on-macos-high-sierra-apache-mysql-and-php-7-with-sslhttps

Start apache server

sudo apachectl start

Start your IGV journey

http://localhost/igv/index.html

Reference

https://github.com/igvteam/igv-webapp