worker_genome_values.py

GENOME_DATABASES_DIRECTORY = './built_databases/genome_data/'
PROTEIN_FEATURES_DIRECTORY = './built_databases/protein_features/'

MITOCARTA_DATA = ['used_data/mitoCarta_data/Homo sapiens/Human MitoCarta3.0.txt',
                  'used_data/mitoCarta_data/Mus musculus/Mouse MitoCarta3.0.txt']

APPRIS_DATA_DIRECTORY = ['used_data/APPRIS_data/Homo sapiens/',
                         'used_data/APPRIS_data/Mus musculus/']

ENSEMBL_ANNOTATIONS = ['used_data/genome_data/Ensembl/Homo sapiens/106/Homo_sapiens.GRCh38.106.gff3',
                       'used_data/genome_data/Ensembl/Mus musculus/106/Mus_musculus.GRCm39.106.gff3']

ENSEMBL_SEQUENCES = ['used_data/genome_data/Ensembl/Homo sapiens/106/Homo_sapiens.GRCh38.dna_sm.primary_assembly.fa',
                     'used_data/genome_data/Ensembl/Mus musculus/106/Mus_musculus.GRCm39.dna.primary_assembly.fa']

NCBI_ANNOTATIONS = ['used_data/genome_data/NCBI/Homo sapiens/110/(+utrs)GCF_000001405.40_GRCh38.p14_genomic.gff',
                    'used_data/genome_data/NCBI/Mus musculus/(+utrs)GCF_000001635.27_GRCm39_genomic.gff']

NCBI_SEQUENCES = ['used_data/genome_data/NCBI/Homo sapiens/110/GCF_000001405.40_GRCh38.p14_genomic.fna',
                  'used_data/genome_data/NCBI/Mus musculus/GCF_000001635.27_GRCm39_genomic.fna']

NUMBER_OF_CHROMOSOMES = [25, 22]

#   Homo sapiens - 25: 22 autosome + 2 sex + (1 mitochondrion chromosome IGNORED)
#   Mus musculus - 22: 19 autosome + 2 sex + (1 mitochondrion chromosome IGNORED)