I used prefetch tool of “SRA-TOOLKIT-2.9.6” was used to download SRR11048974 (.sra file). It was converted to .fastq file by fastq-dump of SRA-TOOLKIT. this .fastq file was analysed by “MetaPhlAn version 2.96.1 (02 Feb 2020)”. But both the “SRR11048974.fastq.bowtie2out.txt” and profile “SRR11048974.txt” files are not giving expected result. It shows:
“#mpa_v296_CHOCOPhlAn_201901
#/home/deep/miniconda3/bin/metaphlan2.py SRR11048974.fastq --input_type fastq --nproc 4
#SampleID Metaphlan2_Analysis
#clade_name NCBI_tax_id relative_abundance
UNKNOWN -1 100.0”
I am facing same output for many other files also.
But i found good results when run the example samples given in tutorial link (https://bitbucket.org/biobakery/biobakery/wiki/metaphlan2#rst-header-run-a-single-sample).
I’m a newbie in this field. please help me in simple understandable language.
Thanks in advance.