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pachterlab / sleuth

Differential analysis of RNA-Seq
http://pachterlab.github.io/sleuth
GNU General Public License v3.0
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why you not filter the data firstly? #268

Open hanguojun007 opened 2 years ago

hanguojun007 commented 2 years ago

why you not filter the data firstly? i want get more transcripts, but some can't maping , for example: the /GENCODE/mouse/gencode.vM28.transcripts.fa , it get 40000s, but half is 0. so the q.value is very big finally. i have to use DESeq.

Yenaled commented 2 years ago

We do have a filter to improve false discovery rate: https://rdrr.io/github/pachterlab/sleuth/man/sleuth_prep.html

(see the filter options there, the default is the basic_filter)