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3 days ago 4e270a9 padix-key:ion-atom-names pull_requestCompare
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CompareUse the element as atom name for single atoms in `create_atom_names()`
#897
padix-key:ion-atom-names
3 days ago
CPU Simulation
98 total
benchmark_create_kmers
benchmarks/sequence/align/benchmark_kmer.py224.3 µs
benchmark_decode
benchmarks/sequence/benchmark_alphabet.py3.4 ms
benchmark_encode
benchmarks/sequence/benchmark_alphabet.py179.7 µs
benchmark_match_table[KmerTable-11*11*1*1***111]
benchmarks/sequence/align/benchmark_kmers.py15.2 ms
benchmark_similar_kmers
benchmarks/sequence/align/benchmark_kmer.py316 µs
benchmark_get_a3m_alignments
benchmarks/sequence/benchmark_fasta.py577.8 ms
benchmark_get_sequences[fasta_path0-NucleotideSequence]
benchmarks/sequence/benchmark_fasta.py184.6 ms
benchmark_indexing_from_kmer_selection[11*11*1*1***111-BucketKmerTable(100000)]
benchmarks/sequence/align/benchmark_kmers.py9.2 ms
benchmark_get_sequences[fasta_path1-ProteinSequence]
benchmarks/sequence/benchmark_fasta.py8.8 ms
benchmark_indexing_from_kmer_selection[11*11*1*1***111-KmerTable]
benchmarks/sequence/align/benchmark_kmers.py12.3 ms
benchmark_match_table[KmerTable-None]
benchmarks/sequence/align/benchmark_kmers.py15.2 ms
benchmark_clustering[neighbor_joining]
benchmarks/sequence/benchmark_phylo.py621 µs
benchmark_clustering[upgma]
benchmarks/sequence/benchmark_phylo.py485.1 µs
benchmark_indexing_from_kmer_selection[None-BucketKmerTable(100000)]
benchmarks/sequence/align/benchmark_kmers.py9.1 ms
benchmark_score_threshold_rule[11*11*1*1***111]
benchmarks/sequence/align/benchmark_kmers.py2 s
benchmark_structural_alphabet_methods[to_3di]
benchmarks/structure/benchmark_alphabet.py9.9 ms
benchmark_structural_alphabet_methods[to_protein_blocks]
benchmarks/structure/benchmark_alphabet.py6.9 ms
benchmark_indexing_from_kmer_selection[None-KmerTable]
benchmarks/sequence/align/benchmark_kmers.py12.3 ms
benchmark_score_threshold_rule[None]
benchmarks/sequence/align/benchmark_kmers.py2 s
benchmark_bond_list_creation
benchmarks/structure/benchmark_bonds.py813.2 µs
benchmark_concatenate
benchmarks/structure/benchmark_bonds.py315.5 µs
benchmark_indexing_from_kmers[11*11*1*1***111-BucketKmerTable(100000)]
benchmarks/sequence/align/benchmark_kmers.py10.2 ms
test_pickle_and_unpickle[BucketKmerTable(10000)-11*11*1*1***111]
benchmarks/sequence/align/benchmark_kmers.py7.4 ms
benchmark_connect[connect_via_distances]
benchmarks/structure/benchmark_bonds.py26.1 ms
test_pickle_and_unpickle[BucketKmerTable(10000)-None]
benchmarks/sequence/align/benchmark_kmers.py7.4 ms