This is a test version of Biostars. For the public version, visit https://www.biostars.org.
input of cummerbund

Hello all. I finally ran cuffdiff successfully, but now i wanna run cummeRbund on galaxy. i have no idea which of the outputs i must use. do i have to do something now or i had to put an option when cuffdiff ran so i had a specific output for cummeRbund?

rna-seq
• 2,158 views • link
updated by e.rempel e.rempel • written by dimitrischat dimitrischat

ok thank you. i will read it through

• 0 views • link
written by dimitrischat dimitrischat

1 answer

Hi,

there is a button in Galaxy UI "Generate SQLite" (default is "NO" !) for CuffDiff tool. Select "Yes", then CuffDiff will generate a SQLite output ready to be used as an only input for CummerBund.

• 0 views • link
written by e.rempel e.rempel

is there an option for that in the command line ? because i (prefer) ran cuffdiff in terminal. many thanks

edit: or manipulate yourself the output(s) of cuffdiff to make an sqlite file?

• 0 views • link
written by dimitrischat dimitrischat

Log in to answer this question.

More posts like this