Hi!
I have run all my FASTQ files with the same setting (but different computers), the first one with a .GTF file (UCSC), the others with the .GFF version (turned on the transcriptome setting on the first run).
First I tried to run Cuffdiff 2.1.1, but got "Order of reads in BAMs must be the same" error.
I then tried Picard sort BAMs, after coordinates, did not work, so I deleted the files.
I then tried Samtools sort on all the BAMs, but I STILL get the same error.
Anyone knows??
I have run all my FASTQ files with the same setting (but different computers), the first one with a .GTF file (UCSC), the others with the .GFF version (turned on the transcriptome setting on the first run).
First I tried to run Cuffdiff 2.1.1, but got "Order of reads in BAMs must be the same" error.
I then tried Picard sort BAMs, after coordinates, did not work, so I deleted the files.
I then tried Samtools sort on all the BAMs, but I STILL get the same error.
Anyone knows??
Comment