I am working with bam files from different NGS platforms and I am trying to use the following computer applications to visualise the reads:
IGV (Broad Institute)
UGENE (UniPro)
Gap5 (staden package)
I would like to know the advantages or disadvantages of each of these apps.
I am interested in:
*editing and saving all the work done in a database. "Maybe not possible due to the amount of data to save".
*compact all the different reads of one sample into one consensus file.
*multiple alignment of different consensus files for visual comparison of exome and/or genome samples.
IGV and Gap5 are mapped read visualizer also called as genomic browsers while
IGV and Gap5 are capable of doing your task,
u can also use tablet for this purpose.
UGENE is bioinformatics tool package and deals with several tasks and it has also assembly browser.
All varying with respect to the input file, your project idea.
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