Mercurial > repos > onnodg > cdhit_analysis
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planemo upload for repository https://github.com/Onnodg/Naturalis_NLOOR/tree/main/NLOOR_scripts/process_clusters_tool commit 4017d38cf327c48a6252e488ba792527dae97a70-dirty
| author | onnodg |
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| date | Mon, 15 Dec 2025 16:44:40 +0000 |
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=== CD-HIT cluster processing started === cluster_file: provided annotation_file: provided === PARAMETERS === output_taxa_clusters: True output_taxa_processed: True simi_plot_y_min: 95.0 simi_plot_y_max: 100.0 uncertain_taxa_use_ratio: 0.5 min_to_split: 0.45 min_count_to_split: 10 min_cluster_support: 1 === PARAMETERS END=== Loaded 622 annotated headers Parsed 268 clusters Similarity text summary written succesfully Similarity mean = 99.80, std = 0.50 Similarity plot written succesfully Count summary written succesfully TOTAL annotated=49571, unannotated=16561, total=66132 Raw taxa per cluster written succesfully Processed taxa (split clusters) written succesfully === SUMMARY === Clusters parsed: 268 Total reads: 66132 Annotated reads: 49571 Unannotated reads: 16561 Clusters with annotations: 29 Clusters fully unannotated: 239 Minimum cluster support for processed taxa: 1 === TAXA SUMMARY (top 10) === Viridiplantae / Streptophyta / Magnoliopsida / Rosales / Cannabaceae / Humulus / Humulus lupulus: 47123 reads Viridiplantae / Streptophyta / Magnoliopsida / Rosales / Rosaceae / Uncertain taxa / Uncertain taxa: 383 reads Viridiplantae / Streptophyta / Magnoliopsida / Fagales / Betulaceae / Alnus / Alnus incana: 300 reads Viridiplantae / Streptophyta / Magnoliopsida / Poales / Poaceae / Uncertain taxa / Uncertain taxa: 288 reads Viridiplantae / Streptophyta / Magnoliopsida / Malpighiales / Salicaceae / Populus / Uncertain taxa: 224 reads Viridiplantae / Streptophyta / Magnoliopsida / Fagales / Fagaceae / Quercus / Quercus rubra: 202 reads Viridiplantae / Streptophyta / Magnoliopsida / Solanales / Uncertain taxa / Uncertain taxa / Uncertain taxa: 180 reads Viridiplantae / Streptophyta / Magnoliopsida / Gentianales / Rubiaceae / Uncertain taxa / Uncertain taxa: 156 reads Viridiplantae / Streptophyta / Magnoliopsida / Uncertain taxa / Uncertain taxa / Uncertain taxa / Uncertain taxa: 146 reads Viridiplantae / Streptophyta / Magnoliopsida / Caryophyllales / Polygonaceae / Uncertain taxa / Uncertain taxa: 134 reads Total unique taxa: 22 === SIMILARITY SUMMARY === Mean similarity: 99.80 Std similarity: 0.50 === CD-HIT cluster processing finished ===