Hi All-
I am analyzing RNASeq data for the first time using Tophat and when I run the following command through the terminal the Tophat information/help page pops up and nothing else seems to happen. There is no error/exception displayed and I have no idea what is wrong with my command. Any help would be greatly appreciated. I am following the tutorial by Illumina for single-read data: http://www.illumina.com/documents/pr...ysisTopHat.pdf
My command:
--GTF Mus_musculus/UCSC/mm10/Annotation/Genes/genes.gtf --library-type fr-firststrand --num-threads 1 --output-dir Mouse_output S1.fastq
I am analyzing RNASeq data for the first time using Tophat and when I run the following command through the terminal the Tophat information/help page pops up and nothing else seems to happen. There is no error/exception displayed and I have no idea what is wrong with my command. Any help would be greatly appreciated. I am following the tutorial by Illumina for single-read data: http://www.illumina.com/documents/pr...ysisTopHat.pdf
My command:
--GTF Mus_musculus/UCSC/mm10/Annotation/Genes/genes.gtf --library-type fr-firststrand --num-threads 1 --output-dir Mouse_output S1.fastq
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