Page Comparison

DiseaseCohortName

A string of the form

    <project_name>-<disease_specification>[-<sample_type>]

for example: TCGA-ACC-TP.

The <disease_specification> most often refers to a single disease study given by its disease abbreviation , such as GBM for Glioblastoma Multiforme;  but may also refer to an aggregate of multiple diseases, such as PANCAN12 (which refers to a cohort of 12 diseases created to study pan-cancer trends) or COADREAD (which combines the single diseases COAD and READ into one cohort).

The optional <sample_type> suffix consists of a literal dash followed by a sample type code designating the tissue sample type; for example, the suffix "-TP" indicates that the given archive contains results based upon primary tumor data.  As a final example, here's how sample type codes  would most commonly map to sample sets in Firehose, for a single disease study:

TaskName

Tasks should be named as

    <Datatype>_<AlgorithmName>

For example: CopyNumber_Gistic2. The datatypes correspond to columns 2-12 in any of our sample data tables

with several types spelled out in longer form for clarity as follows:

RunCode

Revision

A small integer (usually single digit) indicating how many times the given <TaskName> was successfully run in the given pass.