Running a local fork of higlass-server

The goal is to set up a Django management command and API route (with authentication support) for deleting HiGlass tilesets. We will do the work on a t2.micro EC2 instance running Ubuntu 18.04 (ami-0f65671a86f061fcd). Nodejs Installation Install node, npm, and npx from Nodejs: $ cd ~ $ wget -qO- > node-v11.1.0-linux-x64.tar.xz $ tar xvf […]

Speedy BED conversion tool: convert2bed

Finishing touches are in place for my convert2bed tool (GitHub site). This utility converts common genomics data formats (BAM, GFF, GTF, PSL, SAM, VCF, WIG) to lexicographically-sorted UCSC BED format. It offers two benefits over alternatives: It runs about 3-10x as fast as bedtools *ToBed equivalents It converts all input fields in as non-lossy a […]