hello everyone, I'm new with regards to RNA-Seq analysis, I'm learning to use HISAT2. My question is relates with the step of build index. the command line are the following according to nprot2006:
$ extract_splice_sites.py hg19_data/genes/hg19.gtf >hg19.ss (ready) $ extract_exons.py hg19_data/genes/hg19.gtf >hg19.exon (ready)
but when I was running the second part:
hisat2-build --ss hg19.ss --exon chrX.exon hg19_data/genome/hg19.fa hg19_tran (it is not ready)
it reached to generate seven files with the follows names:
hg19_tran.1.ht2; hg19_tran.2.ht2; hg19_tran.3.ht2; hg19_tran.4.ht2; hg19_tran.7.ht2; hg19_tran.8.ht2; hg19_tran.rf
the problem: last friday there was a blackout power supply and with this the computer was turned off before finishing.
My question: does anyone know how much files will be generated in the build index?, if a file could be generated, can It be run only the one I'm missing?
I will be attentive to your comments
thanks you all.