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Commits on Jun 10, 2019

• Add note to docs concerning level sample compare statistic output.

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Commits on May 28, 2019

• Report incorrectly formatted BED location files. Previous behavior silently ignored misformatted lines. Also added note in docs for expected file format.

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Commits on Jan 15, 2019

• Fixed missing preprocess several places in the docs. Fixes #138.

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Commits on Dec 18, 2018

• Update to README.

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Commits on Oct 12, 2018

• Version 1.5 release. This release includes two major feature additions. The first is motif-specific model (packaged with CpG, dam and dcm models) which provide more accurate detection of modificati…

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Commits on Aug 1, 2018

• Version 1.4 release. This release includes major improvements to RNA signal processing (via resquiggle command), a major re-write of the Tombo python API, and use of the canonical model as a prior …

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Commits on May 29, 2018

• Minor omissions from quick start guide in README and docs. Also some better error handling around the new testing command scheme.

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Commits on May 23, 2018

• Version 1.3 release. This release includes updates to signal normalization procedure (including sequence-dependent iterative re-scaling) and an outlier-robust alternative model comparison method. T…

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Commits on Mar 12, 2018

• Version 1.2.1 release. This release extends the use of dampened-fraction to all commands that take a statistics file. This release adds additional features for analyzing per-read statistics. This r…

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Commits on Feb 13, 2018

• Major tombo update. Added 6mA alternative model, improved re-squiggle via parameter tuning, per-read statistics output including random genomic access API, cleaner UX (python3 compatible, mappy/min…

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Commits on Dec 21, 2017

• Fixed version filename in in conf.py docs build script.

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• Added pre-processing command to annotate raw FAST5s with basecalled sequence from a FASTQ. Also fixed several minor bugs and updated documentation. Added a note to docs for RNA addressing #9. Corre…

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Commits on Dec 15, 2017

• Minor version upgrade to Tombo to version 1.1. This update includes major changes to the alternative base model estimation as well as a new default 5mC model trained with this new method. Also adde…

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