ABySS 1.1.2 (Feb 15, 2010)

Pop bubbles resulting from indels. Read tar files. Fix performance issues in ParseAligns by syncing KAligner threads periodically.

For additional information about this project, please visit the overview page .

Available downloads

Source

For all platforms (264 kB)

Release Notes

2010-02-15 Shaun Jackman <sjackman@bcgsc.ca>

* Release version 1.1.2.

ABYSS:
* Read tar files including compressed tar files.
* New parameter -b, --bubble-length=N. Pop bubbles shorter than
N bp. The default is b=3*k.

AdjList:
* Include the contig coverage in the output.
* The script abyss-adjtodot converts an ABySS adjacency file to
GraphViz dot format.

PopBubbles:
* Pop bubbles resulting from indels.

KAligner:
* Synchronize the threads periodically (every ten thousand
alignments by default) to ease the computational burden on
ParseAligns. This synchronization can be disabled using --sync=0.
* Use two threads by default.

abyss-pe:
* New parameter, b.
* Use two threads by default.
* The read length argument, l, is deprecated. To emulate the
behaviour of ABySS 1.0.14 and older, set t=6*(l-k+1). The default
is t=k.