Nigel did you get the refgene.txt file to work? Did you have to change it at all?
I have tried using the xenorefgene.txt (best BLAT alignment of known genes from another species) file for the dog (downloaded from http://hgdownload.cse.ucsc.edu/golde...Fam2/database/) and it keeps giving an error that the line format is not recognizable despite being in the exact same format as the human refgene.txt (as far as I can tell). We even used the dos2unix command on the cluster in case the format of line ends was not correct.
Has anyone had issues like this? I have been in contact with the roche people but that has so far not been helpful.
I have tried using the xenorefgene.txt (best BLAT alignment of known genes from another species) file for the dog (downloaded from http://hgdownload.cse.ucsc.edu/golde...Fam2/database/) and it keeps giving an error that the line format is not recognizable despite being in the exact same format as the human refgene.txt (as far as I can tell). We even used the dos2unix command on the cluster in case the format of line ends was not correct.
Has anyone had issues like this? I have been in contact with the roche people but that has so far not been helpful.
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