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Commits on May 23, 2024

• added ".gz" to make publish

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Commits on May 22, 2024

• more condense issues

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• condense only occurs when more than 1 reference

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Commits on May 21, 2024

• adding test

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• wrapping things up

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Commits on May 3, 2024

• consensus assemblies are now condensed if closer than the max dist

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Commits on Apr 30, 2024

• fixed issue with summary

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• Update assign-remainder.R

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• make plots optional

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Commits on Apr 29, 2024

• Merge pull request #8 from DOH-JDJ0303/dev

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• Merge branch 'main' into dev

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• forgot to add '$'

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• forgot to add ''

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Commits on Apr 28, 2024

• adjusting for extra line that R adds

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• error with join

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Commits on Apr 27, 2024

• fixing ATCG filtering

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  2d4f9ec

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• making loose end cluster numbers build from existing

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• val to path

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• new clustering approach to deal with large datasets

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Commits on Apr 26, 2024

• reducing max retries

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• Merge pull request #7 from DOH-JDJ0303/image_fix

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• reducing R memory usage and increasing resources

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• Merge pull request #6 from DOH-JDJ0303/image_fix

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• updating root tip length

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• Merge pull request #5 from DOH-JDJ0303/image_fix

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• fixed image issues

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  247faa0

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• increasing retry number

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Commits on Apr 25, 2024

• add R scripts for cleaning gisaid data

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• default dist threshold from 0.1 to 0.13 based on expected error from Mash paper

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• adding auxiliary scripts

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  0125041

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• fixed issue with summary

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Commits on Apr 12, 2024

• fixed issues with ultrametric trees

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Commits on Apr 8, 2024

• updated schema and decreased default dist

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• Merge pull request #4 from DOH-JDJ0303/ani_threshold_test

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Commits on Apr 4, 2024

• Update test_ani_dist.py

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