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Commits on Sep 29, 2015

• Updated README to include references.

  nboley

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Commits on Sep 16, 2015

• Merge pull request nboley#11 from daler/patch-2

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  nboley

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• use is for comparison with None

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  daler

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Commits on Sep 14, 2015

• Merge pull request nboley#10 from daler/patch-1

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  nboley

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• update README version references

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  daler

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Commits on Sep 1, 2015

• Updated version.

  nboley

  committed
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• Fixed a bug where the idr threshold was set to 0.05 if just the --soft-idr-option was passed.

  nboley

  committed
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Commits on Jul 15, 2015

• Fixed a minor error in the README.

  nboley

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• Merge branch 'tmp_bug_fixes'

  nboley

  committed
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• Revert "Added support for RSEM. It's a bit hackey."

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  nboley

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• Fixed the output format for narrowPeak files and fixed a bug with peak matching when reference peaks are provided.

  nboley

  committed
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Commits on Jun 19, 2015

• Added support for RSEM. It's a bit hackey.

  nboley

  committed
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Commits on Jun 5, 2015

• Changed the setup script to specify that scipy version 0.13.0 or higher is required.

  nboley

  committed
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Commits on Apr 28, 2015

• Merge branch 'master' of https://github.com/nboley/idr

  nboley

  committed
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• Updated the README to indicate that the IDR value is on scale -log10

  nboley

  committed
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Commits on Apr 27, 2015

• Fixed a major bug introduced during the previous rankign commit.

  nboley

  committed
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• Versioned 2.0.1

  nboley

  committed
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• Changed the output file openbing to not occur with the --help option

  nboley

  committed
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• Updated the documentation.

  nboley

  committed
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Commits on Apr 25, 2015

• Upadted the code to use the closest oracle peak as a match when --peak-lsit is set

  nboley

  committed
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• Merged from master

  nboley

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Commits on Apr 21, 2015

• Updated the version to 2.0.0

  nboley

  committed
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• Updated the version, updated the license, fixed a very small bug.

  nboley

  committed
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Commits on Apr 9, 2015

• Added a random seed option to allow for exactly replicable results.

  nboley

  committed
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• Made the plots nicer.

  nboley

  committed
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Commits on Apr 7, 2015

• Changed the bed score to be on a logrithmic scale.

  nboley

  committed
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Commits on Mar 26, 2015

• Fixed bugs in the multiple sample merging code.:

  nboley

  committed
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• Merge branch 'master' into multiple_samples

  nboley

  committed
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• Stopped using numpy.full to increase compatability with old numpy versions. Fixed a title labelling error with the 'plot' command.

  nboley

  committed
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Commits on Mar 25, 2015

• Updated the code to fix a numpy future warning

  nboley

  committed
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Commits on Mar 19, 2015

• Fixed a bug when running idr --help

  nboley

  committed
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• Fixed bug with backwards compatability switch.

  nboley

  committed
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• Updated the README to include matplotlib as an optional dependency.

  nboley

  committed
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Commits on Mar 18, 2015

• Updated the merging code to permit multiple samples.

  nboley

  committed
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• Updated the version number.

  nboley

  committed
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