CHANGES

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CHANGES
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0.6.0
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fixes to bugs in mapping rnas where fractions were miscalculated
updated novel module to run with current versions of joblib, sklearn
added training data files for novel model

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0.5.0
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fixes to work with python 3 properly
snap now works
updated to use mirbase release 22
mpl tk fix
sphinx docs added
can run novel predictions in parallel
some fixes to precursor generation
removed bedtools dependency

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0.4.0
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added test trf module for trna fragment counting
differential expression improved output
implemented separate limma and edgeR for de analysis

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0.3.0
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Added missing code for isomir counting
Fix for problem with treating filenames as strings in python 2 when calling HTSeq
Some changes to output for mirna counting
Can run a basic test from cmd line
Tested to work on OSX

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0.2.2
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Fixed missing isomir code
Fix for filename types with HTSeq in python2
Some changes to output for mirna counting

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0.2.1
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Can do feature counting from command line
Fixed to allow split counts for multi mappers
Changes to novel report output
Removed biopython dep
Removed some mpl imports

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0.2.0
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Added command line interface
Re-arrangement of modules
Added feature counting
Native mirna/isomir counting
Novel mirna discovery added

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0.1.0
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Renamed from old mirnaseq name
Updated modules for adding to pip
Python 3 compatible