Code

Fixes and enhancements#22

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luissian merged 21 commits intoBU-ISCIII:developBU-ISCIII/taranys:developfrom saramonzon:developsaramonzon/taranis:developCopy head branch name to clipboardMay 2, 2024

+32,831-84

Commits

Commits on Apr 27, 2024

• added mash blast correlation script

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  7878b04

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Commits on Apr 29, 2024

• adapted mash blast correlation script

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  8f8a80f

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• added requiremens for assets

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  b92e13f

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• a couple of fixes in mash_blast_correlation script

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  0656976

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• fix result df creation in mash blat correlation script

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  385897c

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• linting mash blast correlation script

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  4b06a60

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Commits on Apr 30, 2024

• fix typo in requirements.txt

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  4abdcad

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• renaming and cleaning main

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  77f3e47

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• rewriten hamming distance, tested and fixed bugs

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  0469523

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• renaming def in utils

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  0067084

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• rewritten filter_df function, now filtering both rows and columns, matrix is printed as well as two distance matrices

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  554e255

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Commits on May 1, 2024

• rename variable for clarity, add dtype to read_csv

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  25d07e7

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• clarified help messages, fixed default value for keeping a locus in distance matrix fil

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  e465cfa

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• removed missing pdb

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  e2e2416

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• fixed big fingers typo

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  a70d500

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• variable renaming and fixed bounds for condition

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  2d8af1e

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• minor modifications in graph for mash blast corr script

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  4816242

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• added filter with regex

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  c666e1d

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• added notebook for benchmarking analysis

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  4ba230d

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• added masking after filtering per row in df_filter

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  5edcc6d

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• black linting

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  b47351c

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