Hello,
I am still new to treeWAS, so maybe this is a silly question. I am considering using output from ClonalFrameML. I have a question: will the significant SNPs/positions found be extracted from ML_sequence.fasta? And if I need to refer to a particular position, will I need to cross-reference the original fasta (used as input in ClonalFrameML) with the position_cross_reference.txt to find the exact position? I feel like I am missing something. Also, since I am already asking, is there a table in ClonalFrameML that refers to the position in the original fasta, such as position 1 in ML_sequence.fasta = position 1000 in the input?
Thanks,
Angelika
Hello, I am still new to treeWAS, so maybe this is a silly question. I am considering using output from ClonalFrameML. I have a question: will the significant SNPs/positions found be extracted from ML_sequence.fasta? And if I need to refer to a particular position, will I need to cross-reference the original fasta (used as input in ClonalFrameML) with the position_cross_reference.txt to find the exact position? I feel like I am missing something. Also, since I am already asking, is there a table in ClonalFrameML that refers to the position in the original fasta, such as position 1 in ML_sequence.fasta = position 1000 in the input? Thanks, Angelika