- Apr 03, 2024
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nina.marthe_ird.fr authored
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- Apr 02, 2024
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
inverted the start and stop positions in the output gff when the stop was before the start (in inverted regions)
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- Mar 22, 2024
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
changed the usage of id and cov; -ann is now required, and these options only work on -ann and -pav (the rest will come later)
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
the function that generates the target genomes gff now doesnt transfer if the coverage or id is too low
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- Mar 21, 2024
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
added a dict that stores the size of the segments, to get the coverage and sequence id of the transfers
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- Mar 13, 2024
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
changed the creation of Feature objects to handle intersect files where a feature can appear after its childs, to handle complete gff files
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nina.marthe_ird.fr authored
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- Mar 12, 2024
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
corrected the emptying of the dict segments_on_target_genome; this reduced the number of fragmented genes, that were due to segments from previous genome staying in the dict
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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- Mar 11, 2024
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
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- Mar 08, 2024
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nina.marthe_ird.fr authored
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nina.marthe_ird.fr authored
adapted to keep the orientation of the segments from the walks. added functions to better handle inversions
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nina.marthe_ird.fr authored
adapted the code to keep the orientation of the segments from the walks. added functions to handle oriented segments
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nina.marthe_ird.fr authored
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- Mar 05, 2024
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nina.marthe_ird.fr authored
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