I downloaded VirTect to identify HPV in human RNA-seq.
However, when I run the script download_fasta_index_v02.py, there are 2 problems for me.
I would like to download hg19 genome fasta but at the line:
os.system('''gunzip human_reference/GRCh37_mapping/gencode.v27lift37.annotation.gtf.gz''')
GRCH37_mapping directory does not exist and at the line:
os.system('''bowtie2-build human_reference/GRCh38.p10.genome.fa human_reference/GRCh38.p10.genome''')
I think it "GRCh37.primary_assembly.genome.fa" and "GRCh37.primary_assembly.genome"
Will other issues appear due to this two little mistakes for the next command ?
Good morning,
I downloaded VirTect to identify HPV in human RNA-seq. However, when I run the script download_fasta_index_v02.py, there are 2 problems for me.
I would like to download hg19 genome fasta but at the line:
os.system('''gunzip human_reference/GRCh37_mapping/gencode.v27lift37.annotation.gtf.gz''')GRCH37_mapping directory does not exist and at the line:
os.system('''bowtie2-build human_reference/GRCh38.p10.genome.fa human_reference/GRCh38.p10.genome''')I think it "GRCh37.primary_assembly.genome.fa" and "GRCh37.primary_assembly.genome"Will other issues appear due to this two little mistakes for the next command ?
Best regards,
Corentin