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Hi there!
I am working with RNA-seq (transcriptome) data generated by SOLiD (ABI technology). I used the Rsubread package (an R wrapper for the Subread aligner C-program) to align my human samples against a reference genome. I obtained one SAM file for each of my samples (16 samples). The SAM files are in color-space. When I try to visualize them in some visualizer tool, I can't get it right because of the color-space. If I upload a reference genome (nucleotide) and then the SAM files in color-space I do not get anything mapped.
Anyone knows about a visualizer that is designed for these kind of data?
Or some converter that converts the color-space SAM file into the corresponding nucleotides (not just 0=A, 1=C ...)?
Thank you very much!
Regards,
Lucía
I am working with RNA-seq (transcriptome) data generated by SOLiD (ABI technology). I used the Rsubread package (an R wrapper for the Subread aligner C-program) to align my human samples against a reference genome. I obtained one SAM file for each of my samples (16 samples). The SAM files are in color-space. When I try to visualize them in some visualizer tool, I can't get it right because of the color-space. If I upload a reference genome (nucleotide) and then the SAM files in color-space I do not get anything mapped.
Anyone knows about a visualizer that is designed for these kind of data?
Or some converter that converts the color-space SAM file into the corresponding nucleotides (not just 0=A, 1=C ...)?
Thank you very much!
Regards,
Lucía