search

giannimonaco / ABIS

57 stars 16 forks source link

To use ABIS shiny app for large TCGA data #12

Open imrankhan27 opened 3 years ago

imrankhan27 commented 3 years ago

Hi, I am interested in using your ABIS app. Would it be possible to run ABIS (web version) on a large RNA-seg data from TCGA? Till how many samples web version is useful or there is no limit. My sample size is approximate at around 500. can you also attach your "TPMPBMC.txt" example file? Best regards: Imran

giannimonaco commented 3 years ago

Hi Imran,

if you want to use the web version, your file should not be more than 5 MB. You could just split your samples into different files no bigger than 5 MB. Also, you could also just keep the genes that are contained in this file: https://github.com/giannimonaco/ABIS/blob/master/data/sigmatrixRNAseq.txt

You can find the "TPMPBMC.txt" example file here: https://github.com/giannimonaco/ABIS/blob/master/data/TPMPBMC.txt

Best, Gianni

On Mon, 28 Sep 2020 at 06:13, imrankhan27 notifications@github.com wrote:

Hi, I am interested in using your ABIS app. Would it be possible to run ABIS (web version) on a large RNA-seg data from TCGA? Till how many samples web version is useful or there is no limit. My sample size is approximate at around 500. can you also attach your "TPMPBMC.txt" example file? Best regards: Imran

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/giannimonaco/ABIS/issues/12, or unsubscribe https://github.com/notifications/unsubscribe-auth/AC2UTEHH4NIBIH5WC7QN46TSIAEOBANCNFSM4R4AEY5Q .