https://divingintogeneticsandgenomics.com/tags/fpkm/ Recent content in FPKM on Chatomics Hugo -- gohugo.io en-us © 2018 Ming 'Tommy' Tang Tue, 23 Jun 2015 14:01:00 -0700 https://divingintogeneticsandgenomics.com/archive/rpkm-fpkm-tpm-and-raw-counts-for-rna-seq/ Tue, 23 Jun 2015 14:01:00 -0700 https://divingintogeneticsandgenomics.com/archive/rpkm-fpkm-tpm-and-raw-counts-for-rna-seq/ There was a hot discussion that RPKM should not be used in the RNA-seq analysis: blahah404 Woohoo - death to FPKM and RPKMHowever @BioMickWatson has a different opinion, he thinks FPKM makes sense. Why FPKM makes sense what is RPKM or FPKM? see blog posts below: update on 07/23/2015, see a youtube video  for great explanation of the three. What is the FPKM? A review of RNA-Seq expression units https://divingintogeneticsandgenomics.com/archive/fpkms-and-counts-compared-for-rna-seq-data/ Thu, 12 Sep 2013 10:24:00 -0700 https://divingintogeneticsandgenomics.com/archive/fpkms-and-counts-compared-for-rna-seq-data/ A very nice article comparing FPKMs and raw counts in RNA-seq data analysis http://www.cureffi.org/2013/09/12/counts-vs-fpkms-in-rna-seq/ " counts are simply the number of reads overlapping a given feature such as a gene. FPKMs or Fragments Per Kilobase of exon per Million reads are much more complicated. Fragment means fragment of DNA, so the two reads that comprise a paired-end read count as one. Per kilobase of exon means the counts of fragments are then normalized by dividing by the total length of all exons in the gene (or transcript).