Readtagger

Latest version: v0.5.25

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0.3.4

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* Speed up assembly steps using multithreading
* Implement a cache for the Cluster.can_join method

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0.3.3

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* Fix a crash when writing GFF for a cluster of hardclipped reads
* Change confusing variable names and copypasted docstring

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0.3.2

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* Fix another crash when tuple starts with 1,2,7 or 8

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0.3.1

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* Fix a crash when a mismatch is the last item in a cigartuple

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0.3.0

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* Add a galaxy tool for the findcluster script
* Add new script that finds clusters of reads and outputs GFF or BAM files with these clusters.
* Implement writing clusters as GFF files
* Implement writing out reads with cluster number annotated in CD tag.
* Implement merging of clusters based on whether reads contribute to common contigs
* Use cached-property where it makes sense
* Add module to find, join and annotate clusters of reads
* Represent cigartuple as namedtuple
* Add a Roadmap file
* Add more logic for finding ends of insertions and
* Manipulate cluster of reads to find TSDs
* Add module for cap3 assembly and manipulation of assembled reads
* Fix conda recipe script entrypoints

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0.2.0

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* Reformat help text in galaxy wrappers
* Add add_matesequence script to add the sequence of the mate of the current read as a tag
* Add option to discard alternative tag if read is a proper pair
* Stitch cigars that are separated by I or D events
* Add a tag tuple that knows how to format itself
* Update README.rst example with current default tag prefix
* Test with and without discarding verified reads
* Symlink test-files that are shared with the galaxy test, add testcase for allow_dovetailing script
* Fix HISTORY.rst formatting

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