Correlation Pipeline Release v2.1

The pipeline now has full support for grch38-aligned BAMs as well as hg19-aligned BAMs. Furthermore, it is now publicly available with the BSD-3-Clause license!

Correlation Pipeline Release v2.0

Three major changes are included with this release:

• Addition of MINT compatibility.
• Addition of automated recognition of paired-end vs single-end BAM files, although it may still be defined if so desired.
• Addition of long arguments for easier use.

Major version number has been incremented since the addition of long arguments has rendered the pipeline incompatible with previous use scripts.

Correlation Pipeline Release v1.2

This version of the pipeline has been adjusted to allow for WDL compatibility. All created files are full permissions--no longer no-user--and internal folder management has been modified.

Correlation Pipeline Release v1.1

This update adds the -n flag to allow for the processing of Mint-ChIP data sets. This flag is required, as it tells the pipeline to treat both input BAMs as Mint-ChIP data, thus removing data overlapping Mint-ChIP specific blacklisted regions.

Correlation Pipeline Release v1.0

First 'complete' release of the correlation pipeline. The pipeline is capable of calculating the correlation of 2 input BAM files & saving the result to a file/reporting to stdout. Log files are created for debugging, and there is automated testing on build.

With Testing & Correlation-Only Output

This release has the following features:

• It is capable of calculating correlation, given 2 bam files, printing the result to standard output using the flag -s.
• It has included test_data & testPipeline.sh scripts to ensure that the script is running properly.

0.1-alpha

Fix TAG_NAME substitution in CloudBuild