Python IO.read_rna_bin_file Examples

Example #1

File: test_matchmaker.py Project: sunqiangzai/pyteiser

def prepare_known_seeds(args):
    seqs_shape, seqs_to_test, bin_file_to_test, desired_numbers = define_constants(args)

    w_motifs_list = [0] * len(seqs_to_test)
    for ind, seq in enumerate(seqs_to_test):
        curr_test_motif = structures.w_motif(seqs_shape[0], seqs_shape[1])
        curr_test_motif.from_string(seq)
        w_motifs_list[ind] = curr_test_motif

    seqs_dict, seqs_order = IO.read_rna_bin_file(bin_file_to_test)
    w_seqs_list = [seqs_dict[name] for name in seqs_order]

    n_motifs_list = type_conversions.w_to_n_motifs_list(w_motifs_list)
    n_seqs_list = type_conversions.w_to_n_sequences_list(w_seqs_list)
    return n_motifs_list, n_seqs_list

Example #2

File: test_elongated_seed_profile.py Project: noahpieta/pyteiser

def read_sequences(rna_bin_filename):
    seqs_dict, seqs_order = IO.read_rna_bin_file(rna_bin_filename)
    w_seqs_list = [seqs_dict[name] for name in seqs_order]
    n_seqs_list = type_conversions.w_to_n_sequences_list(w_seqs_list)

    return n_seqs_list