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1. Commits on Aug 10, 2025

   • clean-up old code, adding self-contained source package

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2. Commits on Jan 6, 2025

   • merged v3.0.0 changes

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3. Commits on Jun 17, 2021

   • build ok, needs testing

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4. Commits on Aug 29, 2019

   • merged 2.0.1 update

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   • updates for v2.0.1

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5. Commits on May 20, 2019

   • partial merge/update to v1 master changes

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6. Commits on May 15, 2019

   • testing pre-release

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7. Commits on Sep 7, 2016

   • v1.3.0 with improved abundance estimation algorithm; UCSC GTF parsing fix

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8. Commits on May 11, 2016

   • keep transcript data uptr around for all guides

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   • transcript merge implemented (--merge option)

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9. Commits on Aug 25, 2015

   • fix unstable sorting issue affecting read strand assignment in some loci

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10. Commits on May 15, 2015

    • improve RC_ExonOvl with mate overlap hint

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    • added RC_Feature::movlcount to keep track of exon overlap lengths

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    • -x option added; still FPKM and cov diff with -B

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11. Commits on May 14, 2015

    • wip: refactoring raw counts code

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12. Commits on May 13, 2015

    • more refactoring/improving of read counting

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    • wip: redoing Ballgown counting even without -B

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13. Commits on May 4, 2015

    • quick-tested: plugged some memory leaks

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    • wip: branch ready for testing now

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14. Commits on Apr 29, 2015

    • wip: fixing thread delay issues

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15. Commits on Apr 3, 2015

    • fixing e2t.ctab not listing multiple t_id; a few other checks added

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16. Commits on Feb 22, 2015

    • bringing up to date with svn 1.0.1 version

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