ballgown bamfiles vector
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jac1318 • 0
@jac1318-17055
Last seen 5.6 years ago

I notice that in the ballgown constructor there is an option to enter a "bamfiles" vector, as described in the ballgown manual here:

bamfiles                optional vector of file paths to read alignment files for each sample. If provided,

                               make sure to sort properly (e.g., in the same order as samples). Default NULL.

I don't understand what the use for this is though.  I do have bam files, but if I just leave this vector as NULL, am I losing some downstream capability?

Thanks!  

 

UPDATE:

I found the answer to my question in the ballgown github site, here:   https://github.com/alyssafrazee/ballgown

  • "The bamfiles component isn't currently used by any ballgown functions, but it could come in handy for users of RSamtools or similar packages."

 

 

ballgown • 750 views
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Entering edit mode
jac1318 • 0
@jac1318-17055
Last seen 5.6 years ago

I found the answer to my question in the ballgown github site, here:   https://github.com/alyssafrazee/ballgown

  • "The bamfiles component isn't currently used by any ballgown functions, but it could come in handy for users of RSamtools or similar packages."
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