Hello Everyone,
I am working on a 32 bit RH Linux machine and setting up a RNASeq analysis pipeline. As part of ERANGE, I am building an index of the expanded genome but on including .fa.masked files the total number of characters balloons to more than 2^32. I went ahead and built two index files by splitting all the files into two sets.
I tried an small example of aligning a 36bp read against both the refseq and ensembl index. No alignments are found if I use two index together in the command line but they are found when searched against one index at a time. Is this the only option when there are multiple index files or am I missing something more obvious?
Thanks for your help.
I am working on a 32 bit RH Linux machine and setting up a RNASeq analysis pipeline. As part of ERANGE, I am building an index of the expanded genome but on including .fa.masked files the total number of characters balloons to more than 2^32. I went ahead and built two index files by splitting all the files into two sets.
I tried an small example of aligning a 36bp read against both the refseq and ensembl index. No alignments are found if I use two index together in the command line but they are found when searched against one index at a time. Is this the only option when there are multiple index files or am I missing something more obvious?
Thanks for your help.
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