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Releases: bcgsc/tigmint

Tigmint v1.2.10

24 May 18:45
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  • Release Tigmint v1.2.10
  • Allow fastq.gz and fasta.gz input read formats
  • Dockerfile fix
  • Update documentation

Tigmint v1.2.9

04 Jan 00:45
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  • Release Tigmint v1.2.9
  • Use sensitive=True option for ntLink mapping (#113)

Tigmint v1.2.8

06 Dec 21:26
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  • Release Tigmint v1.2.8
  • When mapping=ntLink is added to the tigmint-make command, use ntLink for mapping long reads to the draft assembly instead of minimap2 (#110)
    • This ntLink mapping approach doesn't split the long reads into pseudo-linked reads
  • Add option to use memusg for benchmarking the pipeline (if found in PATH) (#110)
  • Bugfix to tigmint-cut (#110)
  • Benchmarking fix (#109)

Tigmint v1.2.7

13 Oct 23:19
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  • Release Tigmint v1.2.7
  • Remove packaged btllib, making it a dependency
  • Documentation fixes

Tigmint v1.2.6

08 Apr 21:46
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  • Release Tigmint v1.2.6
  • In long-read mode, Tigmint (Tigmint-long) now accepts long read files in fa or fq formats, gzipped or uncompressed (.fa, .fa.gz, .fq., .fq.gz
  • Update btllib to v1.4.1
  • Add SORT_OPTS parameter for specifying additional parameters for sort
  • Bugfixes
  • Documentation improvements

Tigmint v1.2.5

10 Nov 00:08
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  • Updated tigmint-make file to include tigmint steps as targets, such as tigmint-index (perform the bwa index step)
  • Updated tigmint-make to include dist parameter in naming convention of output files

Tigmint v1.2.4

25 Jun 20:24
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  • Changed the default value for genome size parameter: now G=0 if unset
  • Added extra checks for G to be set if using span=auto in tigmint-make

1.2.3

01 Jun 17:45
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  • Release version 1.2.3
  • Added tigmint_molecule_paf.py for inferring molecule extents from minimap2 paf mappings (tigmint-long)
  • Added tigmint_estimate_dist.py to estimate the dist parameter from the first 1M reads (tigmint-long)
  • Translated long-to-linked-pe script to C++ (thanks @jowong4)
  • Documentation updates
  • Bugfixes

Tigmint Version 1.2.2

15 Jan 19:16
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This version of Tigmint includes a couple of changes to the tigmint-long option:

  • long-to-linked produces a fastq file of cut long reads instead of fasta
  • the dist parameter is calculated automatically based on the distribution of long read lengths

1.2.1

31 Aug 19:24
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Tigmint Version 1.2.1

This version corrects a bug introduced in version 1.2.0. The bug affected barcode assignment during long read processing, which then prevented proper corrections.