RNAseq
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==Terminology== | ==Terminology== | ||
:RPKM (reads per kilobase per million reads) = 10^9 * C / (N * L) | :RPKM (reads per kilobase per million reads) = 10^9 * C / (N * L) | ||
- | ::where C = # of mappable reads to a gene (exons), N = total # of mappable reads (size of library), and L = size of gene (bp) or sum of exons ::reference | + | ::where C = # of mappable reads to a gene (exons), N = total # of mappable reads (size of library), and L = size of gene (bp) or sum of exons ::reference - PMID 18516045 |
+ | |||
:FPKM (fragments per kilobase per million reads) | :FPKM (fragments per kilobase per million reads) |
Revision as of 12:07, 12 May 2012
External links
- Informative Q&A for bacterial RNA-seq processing (GFF file for HTseq-count)
- GFF format
- GFF is a format for locating & describing genes and other localized features associated with DNA, RNA and Protein sequences.
- GFF format
Terminology
- RPKM (reads per kilobase per million reads) = 10^9 * C / (N * L)
- where C = # of mappable reads to a gene (exons), N = total # of mappable reads (size of library), and L = size of gene (bp) or sum of exons ::reference - PMID 18516045
- FPKM (fragments per kilobase per million reads)