Entering edit mode
6.3 years ago
H-K
•
0
Hi. Again me. I used miRDeep2 for identification of known and novel miRNAs. Software output was:
#miRNA, read_count, precursor, total, seq and **seq(norm)**
Is seq(norm), normalized read count? or TPM? What is differences between TPM and seq(norm)? Can I use seq(norm) for DESeq2 while I have no biological or technical replicates? Thanks.
Hi Buffo, I moved your comment to an answer, as you are correct about the seq(norm) column.
As it's normalised counts, as stated by Buffoo, then you should not use it for DESeq2. DESeq2 will expect raw un-normalised counts.
Take a look at a similar question on SeqAnswers: How to use DESeq with non Integer values from mirdeep2