...
-G transcripts.gtf can be used to align to transcriptome first and align only those that don't map to transcriptome to the genome. This is useful for speeding up tophat
2. Assemble transcripts using cufflinks on each alignment result
...
...
-G transcripts.gtf can be used to align to transcriptome first and align only those that don't map to transcriptome to the genome. This is useful for speeding up tophat
2. Assemble transcripts using cufflinks on each alignment result
...