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Releases: chhylp123/hifiasm

Hifiasm-0.24.0-r702

16 Dec 19:10
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Since Hifiasm-0.23.0 (r691):

  1. Improved the assembly quality when there are coverage dropouts.

Hifiasm-0.23.0-r691

08 Dec 01:07
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Since Hifiasm-0.22.0 (r689):

  1. Fixed the issue of hifiasm with very high coverage input. This fix applies to all assembly modules, especially for ONT assembly.

Hifiasm-0.22.0-r689

06 Dec 10:32
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Since Hifiasm-0.21.0 (r686):

  1. Fixed the issue that may lead to Segfault (see: #735). This fix applies to all assembly modules.

Known issues:

  1. There is a potential issue with hifiasm that has been observed: it may produce suboptimal results when the input data coverage is extremely high. A temporary solution could be down-sampling to 60x by filtering out shorter reads. We aim to solve this issue as soon as possible.

Hifiasm-0.21.0-r686

27 Nov 18:47
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Since Hifiasm-0.20.0 (r639):

  1. New Feature: Introduced a beta module for ONT assembly using ONT simplex R10 reads. To enable this feature, add the --ont option as shown below:
hifiasm -t64 --ont -o ONT.asm ONT.read.fastq.gz

Please note that this beta module requires input reads in FASTQ format.

Hifiasm-0.20.0-r639

17 Oct 05:34
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This is a relatively large update for hifiasm with the new error correction component. The new error correction component generally allows hifiasm to produce more contiguous genome assemblies with higher quality values (QV) in a shorter amount of time.

Hifiasm-0.19.9-r616

06 May 14:29
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Since Hifiasm-0.19.8 (r603):

  1. Fixed several issues that may lead to segmentation fault.
  2. To produce more T2T contigs/scaffolds, there are multiple new options that can keep telomeres at the ends of contigs/scaffolds, including --telo-m, --telo-p, --telo-d and --telo-s. For instance, using --telo-m CCCTAA for human genome assemblies.
  3. Integrated --ctg-n to discard too small contigs.

Hifiasm-0.19.8-r603

06 Nov 05:13
1ac574a
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Since Hifiasm-0.19.7 (r598):

  1. Fixed several issues like #461.

Hifiasm-0.19.7-r598

10 Oct 16:44
40e2a48
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Since Hifiasm-0.19.6 (r595):

  1. Incorporated the option --dual-scaf to output scaffoldings.
  2. Incorporated the option --scaf-gap to set the max gap size of scaffoldings.

Hifiasm-0.19.6-r595

18 Aug 00:06
94a284b
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Since Hifiasm-0.19.5 (r587):

  1. Fixed the bugs during the UL integration (#476, #495, #394).
  2. Incorporated the option --ul-cut to filter out too short UL reads during the assembly.
  3. Incorporated the option --trio-dual to utilize homology information to correct trio phasing errors.

Hifiasm-0.19.5-r587

18 Apr 00:16
5bddae4
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Since Hifiasm-0.19.4 (r575):

  1. Fixed the bug during the UL integration (#441).
  2. Based on the Flagger result (https://github.com/mobinasri/flagger), fixed the bugs that the diploid assembly may have false duplications or miss some bases.