Search results

18 items matching your search terms.
Filter the results.
Item type























New items since



Sort by relevance · date (newest first) · alphabetically
by Ben Vandervalk last modified Apr 16, 2018 09:25 AM
Located in Platforms / / Releases / ABySS 2.1.0
Software Release ABySS 2.1.0
by Ben Vandervalk published Apr 13, 2018
This release adds support for misassembly correction and scaffolding using linked reads, using Tigmint and ARCS. (Tigmint and ARCS must be installed separately.) In addition, simultaneous optimization of `s` (seed length) and `n` (min supporting read pairs / Chromium barcodes) is now supported during scaffolding.
Located in Platforms / / ABySS / Releases
by Ben Vandervalk last modified Mar 14, 2018 04:00 PM
Located in Platforms / / Releases / ABySS 2.0.3
Software Release ABySS 2.0.3
by Ben Vandervalk published Mar 14, 2018
This minor release provides bug fixes and improved reliability for both MPI assemblies and Bloom filter assemblies on large datasets. In addition, many usability improvements have been made to the `abyss-samtobreak` program for misasssembly assessment.
Located in Platforms / / ABySS / Releases
Downloadable File Source Code
by Ben Vandervalk last modified Oct 21, 2016 02:13 PM
Located in Platforms / / Releases / ABySS 2.0.2
Software Release ABySS 2.0.2
by Ben Vandervalk published Oct 21, 2016 last modified Jan 19, 2017 02:25 PM
Fix compile errors with gcc-6 and boost-1.62.
Located in Platforms / / ABySS / Releases
Downloadable File abyss-2.0.1.tar.gz
by Ben Vandervalk last modified Sep 14, 2016 03:24 PM
Located in Platforms / / Releases / ABySS 2.0.1
Software Release ABySS 2.0.1
by Ben Vandervalk published Sep 14, 2016
This release resolves some licensing issues with that were pointed out in 2.0.0. As of 2.0.1, ABySS is now available under a standard GPL-3 license, and the libraries included under `lib/rolling-hash` and `lib/bloomfilter` are now also licensed under GPL-3. For alternative licensing terms, please contact Patrick Rebstein (prebstein at bccancer.bc.ca).
Located in Platforms / / ABySS / Releases
Downloadable File Source code
by Ben Vandervalk last modified Sep 01, 2016 11:13 AM
Located in Platforms / / Releases / ABySS 2.0.0
Software Release ABySS 2.0.0
by Ben Vandervalk published Sep 01, 2016
This release introduces a new Bloom filter assembly mode that enables large genome assemblies with minimal memory (e.g. 34 GB for H. sapiens with 76X coverage bfc-corrected reads). Bloom filter assemblies are currently less contiguous than the default (MPI) assembly mode but are still of high quality (e.g. 3.5 Mbp vs. 4.8 Mbp scaffold NG50 for H. sapiens). Bloom filter assembly mode is enabled by adding three 'abyss-pe' parameters (B = *Bloom filter size*, H = *number of Bloom filter hash functions*, kc = *k-mer coverage threshold*). See 'README.md' for an example. This release also updates several 'abyss-pe' parameter defaults to be more suitable for large genome assemblies with recent Illumina data. In addition, ABySS 2.0.0 includes minor usability improvements for 'abyss-sealer' and removes an unnecessary build dependency on sqlite3.
Located in Platforms / / ABySS / Releases