
## FusionInspector v1.3.0 (May 1, 2018)
Simplified required arguments.  Using CTAT_GENOME_LIB env var for convenience.  Just needs fusion targets and reads and it'll run.
Capturing both pairs for the split-read fusion frags now for display in IGV.
Minor updates for py3 compatibility
FAF calculation is now FAR calculation (fusion allelic ratio instead of fusion allelic fraction ... documentation updated as to the difference).

## FusionInspector v1.2.0 (Feb 28)
Minor updates for compatibility with the latest STAR-Fusion and CTAT genome lib structure.


## v1.1.0 (July 24, 2017)
-Now mostly supporting FusionInspector as a submodule integrated into STAR-Fusion
-works with single-end as well as paired-end reads now.
-incorporates latest fusion-annotation and coding-effect analysis


## v1.0.1 (Feb 2, 2017)
include splice dinucleotides in report
stricter requirements for fusion evidence w/ NH and qual, and more sensible overlap definition for fusion-contrasting pairs
uses samtools v1.3


## FusionInspector Release v0.8.0 (July 28, 2016)
	-compute FFPM values correctly when using gzipped fastq files
	-upgraded SciedPiper and FusionFilter
	-updated FusionFilter better handles overlapping genes in the ref annotation
	-properly parse mismatch count from alignments and filter out lower quality alignments
	-mapping quality must be > 0 for fusion evidence reads
	-incorporated low seq complexity check for fusion evidence reads


## FusionInspector Release v0.5.0 (Mar 5, 2016)
Update to FusionFilter v0.1.0
removed unnecessary env vars, further cleanup, and documentation in sample data area.

## FusionInspector Release v0.4.2 (Feb 2016)
Wiki documentation is updated, removed environmental variable requirements that were unnecessary, and added a README.txt

## FusionInspector v0.4.1 (Jan 6, 2016)
bugfix - fusion spanning and junction read evidence bam files once again written correctly.

## FusionInspector v0.4.0 (Dec 16, 2015)
Includes FFPM (fusion fragments per million total rna-seq reads) normalized evidence support measurements in the summary output.

Runtimes w/ STAR are now much faster and slightly more sensitive while retaining low false positive rates. Be sure to use the very latest STAR software.


## FusionInspector v0.3.3 (Nov 19, 2015)
includes filtering of repetitive reads

## FusionInspector v0.3.2 (Nov 12, 2015)
Uses the very latest STAR software, outputs only those alignments corresponding to the fusion contigs.

## FusionInspector v0.3.1 (Nov 8, 2015)
no longer using kmer read filter when leveraging STAR, as it's unnecessary and just adds to runtime and resource requirements.

## FusionInspector v0.3.0 (Nov 2, 2015)
Initial release. See wiki for documentation.

## FusionInspector Pre-Release v0.2.0 (Aug 10, 2015)
Filters out repetitive reads based on kmer composition.

Ensures that the spanning support frags are each entirely mapped separately to the different genes (not involving junction reads) and are actually concordant (not relying on the bit flags that aren't always set according to expectations).

## FusionInspector v0.1.0 Pre-Release (July 21, 2015)
slimmed down for faster execution, making IGV-prep an option rather than mandatory.

## FusionInspector pre-release v0.0.1 (July 9, 2015)
First pre-release
