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As far as I know, the muscle command line tool doesn't provide the possibility to output anything like this. The only thing you could do is to use clustalw output from muscle (-clw) and parse it afterwards (# of asterisks (identical positions) / alignment length = percent identity)... -
MUSCLE Alignment Stats
Hey I posted previously on The Muscle Alignment thread but didn't get any response so I thought I would try a new thread. Does any one know how to output the percent identity for each alignment using the MUSCLE command line? or any other alignment stats?
Thanks Leanne
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The complexity of cancer is clearly demonstrated in the diverse ecosystem of the tumor microenvironment (TME). The TME is made up of numerous cell types and its development begins with the changes that happen during oncogenesis. “Genomic mutations, copy number changes, epigenetic alterations, and alternative gene expression occur to varying degrees within the affected tumor cells,” explained Andrea O’Hara, Ph.D., Strategic Technical Specialist at Azenta. “As...07-08-2024, 03:19 PM
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