I have installed seqsero2 via conda and run this command:
SeqSero2_package.py -m a -p 16 -t 2 -i r1.fastq.gz r2.fastq.gz
And i got this result
Input files: /home/mikra/salmonela/1274_R1_001.fastq.gz /home/mikra/salmonela/1274_R2_001.fastq.gz
O antigen prediction: -
H1 antigen prediction(fliC): -
H2 antigen prediction(fljB): -
Predicted identification: Salmonella enterica subspecies enterica (subspecies I)
Predicted antigenic profile: -:-:-
Predicted serotype: I -:-:-
Note: No serotype antigens were detected. This is an atypical result that should be further investigated.
I found that strange so i tried same fastq on your webpage and got this:
O antigen prediction: 8
H1 antigen prediction(fliC): i
H2 antigen prediction(fljB): z6
Predicted subspecies: I
Predicted antigenic profile: 8:i:z6
Predicted serotype: Kentucky
Note: etc...
Hello,
I have installed seqsero2 via conda and run this command: SeqSero2_package.py -m a -p 16 -t 2 -i r1.fastq.gz r2.fastq.gz
And i got this result
Input files: /home/mikra/salmonela/1274_R1_001.fastq.gz /home/mikra/salmonela/1274_R2_001.fastq.gz O antigen prediction: - H1 antigen prediction(fliC): - H2 antigen prediction(fljB): - Predicted identification: Salmonella enterica subspecies enterica (subspecies I) Predicted antigenic profile: -:-:- Predicted serotype: I -:-:- Note: No serotype antigens were detected. This is an atypical result that should be further investigated.
I found that strange so i tried same fastq on your webpage and got this: O antigen prediction: 8 H1 antigen prediction(fliC): i H2 antigen prediction(fljB): z6 Predicted subspecies: I Predicted antigenic profile: 8:i:z6 Predicted serotype: Kentucky Note: etc...
So i was wondering what am i doing wrong?