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CBIL

This repository is a shared resource created by the Computational Biology and Informatics Laboratory (CBIL) in Penn’s Institute for Biomedical Informatics. It contains a variety of scripts and packages for bioinformatics applications and other general purpose code.

Dependencies

  • yarn / npm / ant
  • environment variables for GUS_HOME and PROJECT_HOME
  • Internal Dependencies

Installation instructions.

  • bld CBIL

Manifest

Bio
library of value objects for biologically meaningful entities and file types. deprecated in favor of Bioperl.
Cider
set of packages that help generate a website with using page body parts, a navbar, and a configurable look-and-feel.
CSP
CBIL Style Police (CSP) is a Perl package for generating HTML pages and forms in a principled manner.
HQ
library of value objects used when computing hierarchical entropy values
ISA
readers and library of value objects for ISA-Tab Format
TranscriptExpression
Modules for analyzing expression data (Microarray and RNASeq) and other data types.
Util
Helper modules for a variety of tasks