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DIAMOND v2.0.12
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@bbuchfink bbuchfink released this 06 Oct 12:16
· 108 commits to master since this release
v2.0.12
0c64589
  • Fixed an error when using HSP filter settings together with a BLAST database.
  • Optimized the performance of alignment traceback.
  • A non-default setting of --max-hsps will now recompute a full-matrix Smith Waterman alignment with the ranges of the known HSPs masked in the target.
  • A non-default setting for --max-hsps can now be used together with --ext full.
  • The sensitivity levels used for iterated searches can now be manually set by using a space-separated list after the --iterate option.
  • Seeds are masked based on complexity instead of frequency by default.
  • Added the option --seed-cut to set a complexity cutoff for indexed seeds.
  • Added the option --freq-masking to enable masking seeds based on frequency.
  • The fast, default, mid-sensitive and sensitive modes will by default softmask a fixed set of highly abundant sequence motifs.
  • Added the option --motif-masking (0,1) to enable or disable motif masking.
  • Added the option --masking seg to enable SEG masking of target sequences (BLAST default) instead of tantan masking.
  • Fixed a bug that caused the full_sseq output field to contain invalid information or to produce an error when using a BLAST database.
  • Changed composition based statistics to use BLOSUM62 background frequencies.
  • Fixed the zstd dependency in the Dockerfile.
  • Added support for gap letters in BLAST databases.
  • Fixed a bug that caused the --custom-matrix option not to function correctly.
  • Changed the overlap for merging adjoining bands to >0.0.
  • Use more moderate filtering of HSPs in the chaining stage.
Assets 4
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