Releases

Existing and upcoming releases for this project.

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Experimental Releases

Stable Releases

Trans-ABySS 1.5.5 (Aug 02, 2016)
Set default shortest contig length to 100 bp. Skip blat alignments during assembly.
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Trans-ABySS 1.5.4 (May 09, 2016)
Removed transabyss-analyze and its associated modules. We recommend using PAVFinder for structural variant detection.
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Trans-ABySS 1.5.3 (May 22, 2015)
A few bug-fixes; no major changes to assembly algorithms.
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Trans-ABySS 1.5.2 (Nov 14, 2014)
Simplify the installation of required softwares. Less temporary disk space usage in assembly. New options, bugfixes, and improvements.
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Trans-ABySS 1.5.1 (Jul 22, 2014)
Support strand-specific RNAseq data. Major improvement in assembly quality; both rare and common transcripts can be assembled well with "small" k-mer sizes (ie. 25~32).
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Trans-ABySS 1.4.8 (Sep 13, 2013)
Identifies ITD, PTD, and read-throughs, uses qmake for running pipeline in SGE, and more.
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Trans-ABySS 1.4.4 (Oct 09, 2012)
Supports both transcriptome and genome assemblies. A more robust pipeline and improvement to the 3 analysis suites (fusions, indels, and splicing).
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Trans-ABySS 1.3.5 (Sep 13, 2012)
Lowered contig size filtering cutoff from 2k-1 to 2k-10; various improvement to fusions and indel code (see ChangeLog)
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Trans-ABySS 1.3.2 (Feb 29, 2012)
Compatibility with ABySS 1.3.2; Streamlining of pipeline and configuration files; Analysis code improvement
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Trans-ABySS 1.2.0 (Jan 07, 2011)
Bug fixes and performance improved for chimeric transcript codes; also fixed assembly.py to handle output from different ABySS versions
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Trans-ABySS 1.1.0 (Nov 22, 2010)
Added new code for finding putative chimeric transcripts, and adjusted stage 1 filtering to reduce the number of small contigs.
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Trans-ABySS 1.0.1 (Nov 03, 2010)
This release includes updated filtering prior to assembly merging (assembly.py), an updated model_matcher.py, numerous other feature improvements and bug fixes.
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Trans-ABySS 1.0 (Oct 13, 2010)
Pipeline release for the Nature Methods manuscript: "De novo assembly and analysis of RNA-seq data". 2010 Oct 10.
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Trans-ABySS 0.2 (May 26, 2010)
Addition of scripts for novel poly-adenylation site detection and novel anomalous contig detection.
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Trans-ABySS 0.1 (Apr 14, 2010)
Initial Trans-ABySS release
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