ABySS 1.0.3 (Feb 05, 2009)


Tidy up the ends of blunt contigs. Merge blunt contigs that are connected by pairs and overlap.

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

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Change log

2009-01-23  Shaun Jackman  <sjackman@bcgsc.ca>

  • Release version 1.0.3.
  • Merge contigs that ended due to a lack of coverage, but which are connected by paired-end reads and overlap unambiguously.
  • Track the multiplicity the sense and antisense strand separately. Erode the end of a blunt contig until it is represented by both strands.
  • Ignore the case of the nucleotide sequence of a FASTA file.
  • Increase the maximum FASTA line length from 1 kB to 64 kB to allow loading contigs.
  • Output the path through the single-end contigs in the comment field of the paired-end contig.
  • In the paired-end driver script, abyss-pe, Implement a coverage cutoff, c.  Pass the erosion parameter, e, to the single-end assembler.