After the recent changes in TopHat's output format (BAM instead of SAM), I remember reading here that cufflinks would naturally accept BAM as input.
However, when I tried it today I did not succeed.
Do I have to convert the BAM file into SAM? That does not make much sense, given that TopHAt and Cufflinks are part of the same suite ... am I missing something here?
However, when I tried it today I did not succeed.
Do I have to convert the BAM file into SAM? That does not make much sense, given that TopHAt and Cufflinks are part of the same suite ... am I missing something here?
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