Can I apply tximport to transcript-level estimates obtained using cufflinks (cuffquant and cuffnorm) ??
0
0
Entering edit mode
@leiamax2020-24199
Last seen 21 months ago

Hi, I am new to Tximport. In the vignette i see that cufflinks is listed among the tools used for transcript abundance,

(library(tximportData)
dir <- system.file("extdata", package = "tximportData")
list.files(dir) )

However I cant find any command or example that show how to import cufflinks files ("isoforms.counttable" "isoforms.fpkmtable" "significant_isoforms.txt")

Can you please provide some help?

Thank you in advance

tximport Cufflink Tutorial • 373 views
ADD COMMENT
0
Entering edit mode

You may want to edit your posts and add code formatting (backticks, select the text to format and click the 101010 button) to the cufflinks file names to bypass _ being parsed as a markdown character.

code_formatting

Your text without code formatting: "isoforms.counttable", "isoforms.fpkmtable", "significant_isoforms.txt" (see how the first two underscore characters italicize words between them)

Your text with code formatting: isoforms.count_table, isoforms.fpkm_table, significant_isoforms.txt

ADD REPLY

Login before adding your answer.

Traffic: 223 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6