smith-chem-wisc / Spritz

Software for RNA-Seq analysis to create sample-specific proteoform databases from RNA-Seq data
https://smith-chem-wisc.github.io/Spritz/
MIT License
7 stars 11 forks source link

Improving download speed and setup #207

Closed acesnik closed 3 years ago

acesnik commented 3 years ago

This PR improves the download speed of FASTQs from GEO SRA using aspera to perform the download, rather than fasterq-dump.

This also improves the setup for offline usage by downloading the ptmlist and PSI-MOD.

acesnik commented 3 years ago

Also enforces usage of a recent gzip, since some servers have outdated versions.