SSAKE v4.1.1

Fixed non-deterministic behaviour exposed by Perl 5.26 via randomized hash traversal.

This is an in-code fix of the bug.

Due to the hash sorting fix, 4.1.1 takes a slight performance hit over 4.1.0. SSAKE can be invoked as instructed i.e. ./SSAKE in the README

SSAKE v4.1.0

Fixed non-deterministic behavior exposed by Perl 5.26 via randomized hash traversal. Refer to #13 : Code has to be run : PERL_HASH_SEED=0 PERL_PERTURB_KEYS=0 ./SSAKE

SSAKE v4.0.1

removed tarballs from main branch

SSAKE v4.0

Initial support for linked reads, such as those produced by the 10x Genomics Chromium technology
Linked reads are supplied in the original SSAKE format, but the barcode information is indicated by sequence following a single underscore "_"
Added a C. elegans linked read data assembly script in the test folder
Scaffolding options consistent with that of the LINKS scaffolder
SSAKE no longer sorts by/prioritizes high multiplicity reads for assembly
Streamlined file names
Deprecated force-fill gap feature
Bug fixes

SSAKE v3.8.5

Implements targeted de novo assembly. Fixed a bug that manifested when running SSAKE in targeted (-s) de novo assembly mode. Contig sequences as long as the seed sequence were previously misclassified as singlets.