Question: alignseq.loc and the use of 2bit files
gravatar for Ian
3.8 years ago by
United Kingdom
Ian10 wrote:

The alignseq.loc file only mentions the use of .nib files.  Can anyone confirm whether .2bit files can be used instead?

Thank you.

nib alignseq 2bit • 1.1k views
ADD COMMENTlink modified 3.8 years ago by Jennifer Hillman Jackson25k • written 3.8 years ago by Ian10
gravatar for Jennifer Hillman Jackson
3.8 years ago by
United States
Jennifer Hillman Jackson25k wrote:


Yes, .2bit files can be used. Here are some example lines:

seq    mm7    /galaxy/data/mm7/seq/mm7.2bit
seq    mm8    /galaxy/data/mm8/seq/mm8.2bit
seq    mm9    /galaxy/data/mm9/seq/mm9.2bit
seq    mm10   /galaxy/data/mm10/seq/mm10.2bit

For more examples you can take a look at the alignseq.loc we use on the public Main Galaxy instance. It can be obtained from the rsync server's "location" directory. Instructions here:

Best, Jen, Galaxy team

ADD COMMENTlink written 3.8 years ago by Jennifer Hillman Jackson25k
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