I want to use RSEM tool to finish my job. However, I got some question. Here is the code:
rsem-prepare-reference --gtf /home/dwang/Data/GRCh/Homo_sapiens.GRCh37.68.gtf --star -p 2 ~/Data/UCSC/hg19.fa /Data/Results
There are some errors. I do not know why.
Warning: 197611 transcripts are failed to extract because their chromosome sequences are absent. 0 transcripts are extracted. The reference contains no transcripts!
I downloaded the annotation data from "ensembl" and the reference genome from UCSC.