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Commits on Dec 28, 2016

• Merge pull request #27 from ADerr/2016-11-30a_singlecell

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• Added a description for how to download the latest version of the ESAT

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Commits on Nov 30, 2016

• Merge pull request #26 from ADerr/2016-11-30_singlecell

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• added esat.latest.jar file

  ADerr

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• Fixed off-by-error and deleted debugging code in

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• Merge pull request #25 from ADerr/master

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Commits on Aug 16, 2016

• Update InDropPreprocess.java

  ADerr

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• Update NewESAT.java

  ADerr

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• Update README.md

  ADerr

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Commits on Aug 2, 2016

• Merge pull request #22 from mgarber/master

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• Error handling of null sequences

  

  Manuel Garber

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• Merge pull request #2 from mgarber/mgarber-patch-1

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• Updated with pointer to the ESAT web site

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Commits on Jun 15, 2016

• Merge pull request #20 from ADerr/2016-04-26_singlecell

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• Added reporting of "Total aligned UMIs" and "Total de-duped UMIs" to

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Commits on Apr 26, 2016

• Merge pull request #19 from ADerr/2016-04-05_singlecell

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• Modified PCR duplicate removal process to use temporary files that are

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Commits on Apr 6, 2016

• Merge pull request #18 from ADerr/2016-04-05_singlecell

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• Added -filtAT <n> command-line switch to remove any reads with stretches

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Commits on Feb 29, 2016

• Merge pull request #16 from ADerr/2016-02-09_sc

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• Replaced -nextPrep and -inPrep single-cell flags with -scPrep. All

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Commits on Feb 9, 2016

• Merge pull request #15 from ADerr/2015-12-04_inDrop

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• Changes:

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Commits on Dec 4, 2015

• Merge pull request #14 from ADerr/2015-11-09_inDrop

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• Three changes: 1) umiMin default changed from 10 to 0; 2) all genes,

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Commits on Nov 9, 2015

• Merge pull request #13 from ADerr/2015-09-18_inDrop

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• Switched the order of 'proper' multimapper handling and single-cell PCR

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Commits on Sep 18, 2015

• Merge pull request #12 from ADerr/2015-08-28_inDrop

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• Corrected parsing of barcode and UMI from the read ID. Now only assumes

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Commits on Aug 28, 2015

• Merge pull request #11 from ADerr/2015-09-20_inDrop

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Commits on Aug 27, 2015

• Fixed a bug in the window-level read counting

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Commits on Aug 20, 2015

• Merge pull request #9 from afirth/2015-08-20_build_ribosat

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• Merge pull request #10 from elisadonnard/2015-08-20_pval_per_sample

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• score bug fix and pval printing per sample now

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• build ribosat too

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