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Commits on Oct 14, 2024

• change np.int_t to np.int64_t

  

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• Allow python 3.11

  

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• Adding github workflow

  

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Commits on Sep 9, 2024

• clean up

  

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• updated and cleaned

  

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• updated

  

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• merged

  

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• Merging chroder within syri to automatically work with genomes of different karyotypes

  

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Commits on Sep 6, 2024

• Update README.md

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• Updated README to include nf-plotsv

  

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Commits on Jun 5, 2024

• Merge pull request #253

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Commits on Jun 4, 2024

• Update python-igraph dependency to igraph

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Commits on May 21, 2024

• Fixed typos

  

  mnshgl0110

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• Changing conda recipe to use `pip install` and not setuptools

  

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Commits on Feb 22, 2024

• merged selective contents from https://github.com/schneebergerlab/syri/pull/217

  

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• clean

  

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• tmp

  

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Commits on Feb 20, 2024

• Merge pull request #237 from mparker2/master

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• calc chr_sizes from fasta

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Commits on Feb 19, 2024

• Merge pull request #234 from mbhall88/patch-1

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Commits on Feb 7, 2024

• add contig sizes to VCF

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Commits on Jan 18, 2024

• add missing sys import

  mbhall88

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Commits on Dec 7, 2023

• Update README

  mnshgl0110

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Commits on May 30, 2023

• Fixed typo in error message.

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Commits on May 22, 2023

• Added more descriptive warning messages. Remove scipy import. Removed pandas warnings.

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Commits on Mar 13, 2023

• Fixed warning message causef by pandas slicing

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• Added a new parameter to add sample name to the VCF

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Commits on Feb 21, 2023

• Added debug message for alignment filtering

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Commits on Feb 16, 2023

• Merge pull request #177 from lrauschning/master

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Commits on Jan 10, 2023

• Merge branch 'schneebergerlab:master' into master

  lrauschning

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• fixed copy/paste error in vcf exporting

  

  Leon Rauschning

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Commits on Jul 28, 2022

• Updated description of the -f parameter.

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Commits on Jul 18, 2022

• Added exception handling when running multiple syri tasks in a folder. Added utilities for better post-processing syri output.

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Commits on Jul 15, 2022

• BUG FIX: Incorrect logger message

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Commits on Jul 14, 2022

• hapmerge converts alleles to uppercase allowing for easy and correct merging

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