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Old 10-28-2014, 08:03 AM   #6
Nanu
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Location: New Delhi

Join Date: Sep 2014
Posts: 30
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Genomax,

I executed the fastqc , fastx and indexing the reference genome through Bowtie. When i executing the tophat2..it created the accepted.bam and unmapped.bam, align-summary.txt, logs etc...
Here I got only 1 KB size of accepted hits..while unmapped.bam is 200MB in size. i have heterologous reference genome. I downloaded the genome from Ensembl database. I have to find the novel gene, its expression.

Is any particular pipeline for roche transcriptome data?

I am trying to evaluate as denovo through trinity for roche transcriptome data analysis. here increased the RAM as 6GB.

Please help me..
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