usage: gtdbtk classify_wf (--genome_dir GENOME_DIR | --batchfile BATCHFILE) --out_dir OUT_DIR [-x EXTENSION] [--min_perc_aa MIN_PERC_AA] [--prefix PREFIX] [--cpus CPUS] [--force] [--scratch_dir SCRATCH_DIR] [-r] [-d] [-h] 参数: classify_wf -> Classify genomes by pla...
gtdbtk classify_wf --genome_dir bin \ --out_dir classify_wf \ --extension gz \ --prefix bin \ --cpus 8 主要结果文件描述:此处全为细菌基因组,因此均为bin.bac120开头的结果 物种注释 bin.bac120.summary.tsv user_genome classification fastani_reference fastani_reference_radius fastani_taxonomy ...
classify(classify_wf_options) summary_out = os.path.join(classify_wf_options.out_dir, PATH_AR122_SUMMARY_OUT.format(prefix=classify_wf_options.prefix)) summary_out = os.path.join(classify_wf_options.out_dir, PATH_AR122_SUMMARY_OUT.format(prefix=classify_wf_options.prefix)) self.assertTrue...
Additional navigation options master 13Branches46Tags Code Folders and files Name Last commit message Last commit date Latest commit pchaumeil Update classify_wf.ipynb Mar 5, 2025 0f1ae4e·Mar 5, 2025 History 964 Commits .github refactor(config): Refactored config to read variables dependent on ...
gtdbtk classify_wf --genome_dir ./data --out_dir./result--extension .fna --cpus 18 MESSAGE: [Errno 2] No such file or directory: '/home/wentao/miniconda3/envs/gtdbtk/share/gtdbtk-1.7.0/db/markers/pfam/individual_hmms/PF01868.17.hmm ...
gtdbtk classify_wf --genome_dir ./data --out_dir./result--extension .fna --cpus 18MESSAGE: [Errno 2] No such file or directory: '/home/wentao/miniconda3/envs/gtdbtk/share/gtdbtk-1.7.0/db/markers/pfam/individual_hmms/PF01868.17.hmm ...
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> gtdbtk classify_wf --cpus 24 --genome_dir ./my_genomes --out_dir gtdbtk_output The taxonomic classification of each bacterial and archaeal genome is contained in the <prefix>.bac120.summary.tsv and <prefix>.ar122.summary.tsv output files....
gtdbtk classify_wf --genome_dir ./data --out_dir./result--extension .fna --cpus 18MESSAGE: [Errno 2] No such file or directory: '/home/wentao/miniconda3/envs/gtdbtk/share/gtdbtk-1.7.0/db/markers/pfam/individual_hmms/PF01868.17.hmm ...